training-collection
Collection of bioinformatics training materials
Science Score: 49.0%
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Last synced: 7 months ago
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Repository
Collection of bioinformatics training materials
Basic Info
- Host: GitHub
- Owner: sib-swiss
- License: other
- Language: Python
- Default Branch: main
- Size: 216 KB
Statistics
- Stars: 1,040
- Watchers: 45
- Forks: 185
- Open Issues: 1
- Releases: 5
Created over 4 years ago
· Last pushed 8 months ago
Metadata Files
Readme
License
Zenodo
README.md
Bioinformatics training materials
Do you like this collection? You're going to love glittr.org! The collection below is still maintained but updated by glittr.org. So, if you have anything to add or to ask, see you there!
If you haven't stopped reading, you're one of the few that still prefer the old school README :neckbeard:. Nice!
Below you'll find a curated list of bioinformatics training material. All material is:
- In a GitHub or GitLab repository (repositories in self-managed instances of GitLab are not supported anymore..)
- Free to use
- Written in markdown or similar
NOTE: This list of courses is selected only based on the above criteria. There are no checks on quality.
Contents
- Scripting and languages
- Computational methods and pipelines
- Omics analysis
- Genomics
- Next generation sequencing
- Transcriptomics
- RNA-seq
- Single-cell sequencing
- Variant analysis
- Enrichment analysis
- ChIP-seq
- Comparative genomics
- Epigenetics
- Genome annotation
- Genome assembly
- Metagenomics
- Epidemiology
- Microbiology
- Multiomics
- Spatial transcriptomics
- Long read sequencing
- Metabolomics
- Proteomics
- Pathways and Networks
- Protein structure
- Reproducibility and data management
- Statistics and machine learning
- Others
Scripting and languages
Version control
- Software Carpentry swcarpentry/git-novice | website
- BioinfGuru BioinfGuru/gitTutorial
- Kottans kottans/git-course | website
- Gerard Capes gcapes/git-course | website
- The Carpentries Incubator carpentries-incubator/gitlab-novice | website
- Data Carpentry datacarpentry/rr-version-control | website
- VIB Technologies: Training material and software projects vibbits/introduction-github | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-versioning-dm-practices | website
- Sergio Martínez Cuesta semacu/20190927IntroductionGithubHDRUK
- Sergio Martínez Cuesta semacu/20181003Introgit_GitHub
- Sergio Martínez Cuesta semacu/20171024GitHubChemistry_Cambridge
- posit::conf(2024) posit-conf-2024/dev-ops
- Jenna Jordan jenna-jordan/git-novice-speedrun | website
Unix/Linux
- Data Carpentry datacarpentry/shell-genomics | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Shell-for-bioinformatics | website
- Ted Laderas laderast/bashfordnanexus | website
- SIB Swiss Institute of Bioinformatics sib-swiss/unix-first-steps-training
- Software Carpentry swcarpentry/shell-novice | website
- Sundeep Agarwal learnbyexample/clitextprocessing_coreutils | website
- Sundeep Agarwal learnbyexample/cli-computing | website
- Sundeep Agarwal learnbyexample/learn_gnuawk | website
- Sundeep Agarwal learnbyexample/learn_gnused | website
- Sundeep Agarwal learnbyexample/learngnugrepripgrep | website
- slackermedia slackermedia/bashcrawl
- The Carpentries Incubator carpentries-incubator/shell-extras | website
- The Carpentries Lab carpentries-lab/metagenomics-shell | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-September-Introduction-to-the-Command-Line-for-Bioinformatics
- Cloud-SPAN Cloud-SPAN/prenomics00-intro | website
- Sergio Martínez Cuesta semacu/20180726TrainMaltaUnix_R
- Bobby Iliev bobbyiliev/introduction-to-bash-scripting | website
- Firas Zemzem Zemzemfiras1/MasteringLinuxTutorials
- Jeroen Janssens jeroenjanssens/data-science-at-the-command-line | website
Python
- The Carpentries Incubator carpentries-incubator/introduction-to-conda-for-data-scientists | website
- The Carpentries Incubator carpentries-incubator/python-interactive-data-visualizations | website
- Jake Vanderplas jakevdp/PythonDataScienceHandbook | website
- Jake Vanderplas jakevdp/WhirlwindTourOfPython
- Plants&Python PlantsAndPython/PlantsAndPython
- SIB Swiss Institute of Bioinformatics sib-swiss/first-steps-with-python-training
- SIB Swiss Institute of Bioinformatics sib-swiss/intermediate-python-training
- Software Carpentry swcarpentry/python-novice-inflammation | website
- VIB Technologies: Training material and software projects vibbits/gentle-hands-on-python
- Talk Python talkpython/python-for-absolute-beginners-course | website
- Sundeep Agarwal learnbyexample/pyregularexpressions | website
- Sundeep Agarwal learnbyexample/100pagepython_intro | website
- Alex Hall alexmojaki/futurecoder | website
- Guillaume Gautier guilgautier/sdia-python
- cambiotraining cambiotraining/python-data-science
- The Carpentries Incubator carpentries-incubator/python-text-analysis | website
- The Carpentries Incubator carpentries-incubator/python_packaging | website
- The Carpentries Incubator carpentries-incubator/python-testing | website
- The Carpentries Incubator carpentries-incubator/python-intermediate-development | website
- The Carpentries Incubator carpentries-incubator/python-packaging-publishing | website
- The Carpentries Incubator carpentries-incubator/lesson-parallel-python | website
- The Algorithms TheAlgorithms/Python | website
- Oleksii Trekhleb trekhleb/learn-python
- João Ventura joaoventura/full-speed-python
- Sebastian Raschka rasbt/python_reference
- Jeffrey Hu zhiwehu/Python-programming-exercises
- LiaBooks ... by LiaScript LiaBooks/How-To-Code-in-Python-3 | website
- LiaPlayground LiaPlayground/PythonProgramming
- Valentin Danchev valdanchev/reproducible-data-science-python
- Girls Who Code at U-M DCMB GWC-DCMB/GWC-DCMB | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-July-Introduction-To-Python-For-Bioinformatics
- The Gulbenkian Training Programme in Bioinformatics GTPB/PPB18 | website
- Swaroop CH swaroopch/byte-of-python | website
- S.Lott slott56/building-skills-oo-design-book | website
- Real Python realpython/python-guide | website
- OpenTechSchool OpenTechSchool/python-beginners | website
- Ankit Mahato animator/learn-python | website
- Sundeep Agarwal learnbyexample/practicepythonprojects | website
- SoftUni SoftUni/Programming-Basics-Book-Python-EN | website
- Akuli Akuli/python-tutorial
- Charles Severance csev/py4e | website
- Kushal Das kushaldas/pym
- Greg Malcolm gregmalcolm/python_koans
- BioINForm bioinform-org/bioinforming-hs
- Daniel Chen chendaniely/positconf2023-academy_python
- Rami Krispin RamiKrispin/vscode-python
- Wes McKinney wesm/pydata-book
- Kevin Heavey kevinheavey/modern-polars | website
- Python Packages py-pkgs/py-pkgs | website
- bioinfo-prog bioinfo-prog/cours-python | website
- R. Burke Squires burkesquires/python_biologist
- Sergio Martínez Cuesta semacu/data-science-python
- MolSSI Education MolSSI-Education/pythonscriptingcms | website
- Jean de Dieu Nyandwi Nyandwi/PythonBasics
- Scott Reed scottmreed/molecular_informatics
- Scott Reed scottmreed/CodewithGPTtutorial
- Dan Chitwood DanChitwood/plantsandpython | website
- Firas Zemzem Zemzemfiras1/PythonIN-86400sec | website
R
- Bruno Rodrigues b-rodrigues/rap4mads | website
- BHKLAB bhklab/bioc2020workshop | website
- Bioconductor Bioconductor/bioconductor_docker | website
- Biocore@CRG biocorecrg/CRGRtidyverse_2021
- Biocore@CRG biocorecrg/CRGRIntroduction2021
- Canadian Bioinformatics Workshops bioinformatics-ca/AUR_2021
- Canadian Bioinformatics Workshops bioinformatics-ca/INR_2021
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/linear-models-r | website
- Bradley Boehmke bradleyboehmke/Intro-to-R-Bootcamp
- The Carpentries Incubator carpentries-incubator/bioc-project | website
- The Carpentries Incubator carpentries-incubator/high-dimensional-stats-r | website
- Colautti Lab ColauttiLab/RCrashCourse_Book
- Computational Cancer Biology and Epigenomics CompEpigen/BasicR | website
- Colin Gillespie csgillespie/efficientR | website
- C. Li cxli233/OnlineRlearning
- Davis Laboratory DavisLaboratory/GenesetAnalysisWorkflow | website
- David Robinson juliasilge/tidy-text-mining | website
- Danielle Navarro djnavarro/rbook | website
- Duke Department of Statistical Science DukeStatSci/introds | website
- Hadley Wickham hadley/adv-r | website
- Hadley Wickham hadley/r4ds | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-R-flipped | website
- ICS 80 - Introduction to Data Science ics80-fa21/website | website
- Introduction to Data Science - 2020 - Semester 1 ids-s1-20/website | website
- Jennifer (Jenny) Bryan jennybc/purrr-tutorial | website
- James W. MacDonald jmacdon/Bioc2020Anno
- James W. MacDonald jmacdon/Bioc2022Anno
- Joachim Goedhart JoachimGoedhart/DataViz-protocols | website
- Jemma Stachelek jsta/r-docker-tutorial | website
- Tom Mock jthomasmock/rmd-nhs | website
- Ted Laderas laderast/gradual_shiny | website
- Ted Laderas laderast/RBootcamp | website
- Qian Liu Liubuntu/Bioc2020RCWL
- Norm Matloff matloff/fasteR
- Melbourne Bioinformatics melbournebioinformatics/r-intro-biologists
- ModernDive moderndive/ModernDive_book | website
- Nathaniel Phillips ndphillips/ThePiratesGuideToR | website
- Openscapes Openscapes/quarto-website-tutorial | website
- Oscar Baruffa oscarbaruffa/BigBookofR | website
- rstudio::conf(2022) rstudio-conf-2022/art-from-code | website
- rstudio::conf(2022) rstudio-conf-2022/build-tidy-tools | website
- rstudio::conf(2022) rstudio-conf-2022/get-started-quarto | website
- rstudio::conf(2022) rstudio-conf-2022/get-started-shiny | website
- rstudio::conf(2022) rstudio-conf-2022/ggplot2-graphic-design | website
- rstudio::conf(2022) rstudio-conf-2022/intro-to-tidyverse | website
- rstudio::conf(2022) rstudio-conf-2022/shiny-prod-apps | website
- rstudio::conf(2022) rstudio-conf-2022/teach-ds | website
- rstudio::conf(2022) rstudio-conf-2022/wtf-rstats
- RStudio rstudio/rmarkdown-book | website
- Saskia SaskiaFreytag/biocommons-r-intro | website
- Sean Davis seandavi/ITR | website
- SIB Swiss Institute of Bioinformatics sib-swiss/enrichment-analysis-training | website
- SIB Swiss Institute of Bioinformatics sib-swiss/first-steps-with-R-training
- Software Carpentry swcarpentry/r-novice-gapminder | website
- Research IT, University of Manchester, UK UoMResearchIT/r-tidyverse-intro | website
- Waldron Lab at the CUNY SPH waldronlab/enrichOmics
- Jennifer (Jenny) Bryan jennybc/happy-git-with-r | website
- Bioinformatics, Rockefeller University RockefellerUniversity/Bioconductor_Introduction | website
- Bioinformatics, Rockefeller University RockefellerUniversity/IntroToR_1Day | website
- Bioinformatics, Rockefeller University RockefellerUniversity/RU_reproducibleR | website
- Bioinformatics, Rockefeller University RockefellerUniversity/RUtidyversecore | website
- Bioinformatics, Rockefeller University RockefellerUniversity/RU_GenomicVariants
- Hadley Wickham hadley/r-pkgs | website
- Hadley Wickham hadley/mastering-shiny | website
- Dirk Eddelbuettel eddelbuettel/gsir-te
- The Carpentries Incubator carpentries-incubator/bioc-intro | website
- R Programming @ University of Cincinnati uc-r/Advanced-R
- R Programming @ University of Cincinnati uc-r/Intro-R
- R Programming @ University of Cincinnati uc-r/Intermediate-R
- RStudio Education rstudio-education/advanced-shiny-az | website
- RStudio rstudio/learnr | website
- dcruvolo davidruvolo51/shinyAppTutorials | website
- Max Planck Institute of Immunobiology and Epigenetics maxplanck-ie/Rintro
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/r-basics
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-data-visualization-r | website
- The Carpentries Incubator carpentries-incubator/lc-litsearchr | website
- The Carpentries Incubator carpentries-incubator/R-ecology-lesson | website
- The Carpentries Incubator carpentries-incubator/R-ecology-lesson-intermediate | website
- The Carpentries Incubator carpentries-incubator/open-science-with-r | website
- The Carpentries Incubator carpentries-incubator/reproducible-publications-quarto | website
- Data Carpentry datacarpentry/R-ecology-lesson | website
- Data Carpentry datacarpentry/genomics-r-intro | website
- Data Carpentry datacarpentry/rr-automation | website
- Data Carpentry datacarpentry/rr-literate-programming
- RStudio Education rstudio-education/stat545 | website
- nullranges tidyomics/tidy-ranges-tutorial | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-epigenomics-RTDs | website
- Library Data Services UNC-Libraries-data/R-Open-Labs | website
- Greg Wilson gvwilson/tidynomicon | website
- Vince Carey vjcitn/BiocPyInterop | website
- Bioinformatics, Rockefeller University RockefellerUniversity/RU_VisualizingGenomicsData
- genomicsclass genomicsclass/book | website
- Kristyna Kupkova kkupkova/GenomicDistributionsBioC2022
- Workflow Languages in R rworkflow/RcwlWorkshop | website
- tidyomics tidyomics/tidyomicsWorkshopBioc2023 | website
- Surgical Informatics SurgicalInformatics/healthyr_book | website
- Trevor French TrevorFrench/R-for-Data-Analysis | website
- UM Carpentries UMCarpentries/intro-curriculum-r | website
- rostools rostools/r-cubed-intro | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-rstudio-intro-dm-practices | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-r-intro-dm-practices | website
- bioinformatics.ca bioinformaticsdotca/AUR_2023
- Computational Biology and Bioinformatics at UCLouvain UCLouvain-CBIO/WSBIM1207 | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-June-Introduction-to-R-for-Bioinformatics
- Institut Français de Bioinformatique (IFB) IFB-ElixirFr/IFBShinytraining | website
- bioinformatics.ca bioinformaticsdotca/INR_2023
- ELIXIR Estonia ELIXIREstonia/2023-10-24-R-basic | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/ABSTAT18 | website
- Hugo Tavares tavareshugo/2018-06-28-cambridge | website
- Sergio Martínez Cuesta semacu/20180531DataVisualisationRggplot2Wolfson_Cambridge
- Data Carpentry datacarpentry/ecology-workshop | website
- Jacques van Helden jvanheld/statsavecRStudio_EBA | website
- Data Challenge Lab Open Content dcl-docs/prog | website
- G. Jay Kerns gjkerns/IPSUR | website
- Roger D. Peng rdpeng/rprogdatascience
- Marek Gagolewski gagolews/deepr | website
- bougioukas bougioukas/practicalstatsmed-r
- TaniaW taniawyss/flow-cytometry-analysis-with-R | website
- Roger D. Peng rdpeng/exdata
- posit-conf-2023 posit-conf-2023/r-intro | website
- posit-conf-2023 posit-conf-2023/forecasting | website
- posit-conf-2023 posit-conf-2023/pkg-dev-masterclass
- posit-conf-2023 posit-conf-2023/pkg-dev | website
- What They Forgot to Teach You About R rstats-wtf/what-they-forgot | website
- posit-conf-2023 posit-conf-2023/arrow | website
- posit-conf-2023 posit-conf-2023/dataviz-storytelling | website
- posit-conf-2023 posit-conf-2023/ds-workflows-r | website
- posit-conf-2023 posit-conf-2023/vetiver | website
- posit-conf-2023 posit-conf-2023/programming-r | website
- posit-conf-2023 posit-conf-2023/teach-ds-masterclass | website
- posit-conf-2023 posit-conf-2023/dataviz-ggplot2 | website
- posit-conf-2023 posit-conf-2023/creative-coding
- Rami Krispin RamiKrispin/vscode-r
- Winston Chang wch/rgcookbook | website
- RStudio rstudio/rmarkdown-cookbook | website
- RStudio Education rstudio-education/hopr
- swirl development team swirldev/swirl | website
- JD Long CerebralMastication/R-Cookbook
- r-spark r-spark/the-r-in-spark | website
- R for the Rest of Us rfortherestofus/book
- Michael Teske mictes/Shiny_Tutorial | website
- jjallaire jjallaire/hopr
- Rohan Alexander RohanAlexander/tswd | website
- Leonardo Collado-Torres lcolladotor/cshlrstatsgenomescale2024 | website
- Sophie Lee sophie-a-lee/IntroductionRTidyverse_course | website
- Sophie Lee sophie-a-lee/intro-rstudio-mhclg | website
- Stephen Turner stephenturner/workshops | website
- Fred Hutch Data Science Lab fhdsl/ToolsforReproducibleWorkflowsin_R | website
- Aditya Dahiya Aditya-Dahiya/ggplot2book3e
- posit::conf(2024) posit-conf-2024/arrow | website
- posit::conf(2024) posit-conf-2024/ds-workflows-r | website
- posit::conf(2024) posit-conf-2024/databases | website
- posit::conf(2024) posit-conf-2024/pharmaverse | website
- posit::conf(2024) posit-conf-2024/programming-r | website
- Northwestern IT Research Computing and Data Services nuitrcs/R-intro-tidyverse-2025
- posit::conf(2024) posit-conf-2024/tables
- posit::conf(2024) posit-conf-2024/pkg-dev
- posit::conf(2024) posit-conf-2024/r-in-production
- posit::conf(2024) posit-conf-2024/databricks | website
- posit::conf(2024) posit-conf-2024/wtf
- C. Li cxli233/Quickdatavis
- Bruno Rodrigues b-rodrigues/rap4all | website
- Rebecca Barter rlbarter/r-workshop-book
Quarto
- Master of Environmental Data Science (MEDS) program UCSB-MEDS/customizing-quarto-websites | website
- Master of Environmental Data Science (MEDS) program UCSB-MEDS/creating-quarto-websites | website
- posit-conf-2023 posit-conf-2023/quarto-r | website
- Hamel Husain hamelsmu/posit-python-quarto | website
- Isabella Velásquez ivelasq/2024-01-23_getting-started-with-report-writing-using-quarto | website
- Julien Roux julien-roux/SIBdays2024workshopEDI
- posit::conf(2024) posit-conf-2024/quarto-dashboards | website
- posit::conf(2024) posit-conf-2024/quarto-websites | website
Shiny
- Martin J Frigaard mjfrigaard/shinypak | website
- Rami Krispin RamiKrispin/shinylive-r | website
- posit-dev posit-dev/py-shiny-workshop | website
- posit-conf-2023 posit-conf-2023/shiny-r-intro | website
- posit-conf-2023 posit-conf-2023/shiny-r-ui | website
- posit-conf-2023 posit-conf-2023/shiny-r-dashboard | website
- posit-conf-2023 posit-conf-2023/shiny-r-prod | website
- ThinkR ThinkR-open/engineering-shiny-book | website
- Ted Laderas laderast/shinyowl | website
- posit-dev posit-dev/intro-to-shiny-for-python | website
- posit::conf(2024) posit-conf-2024/shiny-r-intro | website
- posit::conf(2024) posit-conf-2024/level-up-shiny | website
Julia
- Antonello Lobianco sylvaticus/juliatutorial
- JuliaAcademy JuliaAcademy/JuliaTutorials | website
- JuliaAcademy JuliaAcademy/DataScience | website
- JuliaAcademy JuliaAcademy/Introduction-to-Julia | website
- JuliaAcademy JuliaAcademy/JuliaProgrammingForNervousBeginners | website
- JuliaAcademy JuliaAcademy/DataFrames
- JuliaAcademy JuliaAcademy/Foundations-of-Machine-Learning | website
- The Carpentries Incubator carpentries-incubator/julia-novice | website
- Antonello Lobianco sylvaticus/SPMLJ | website
- Ben Lauwens BenLauwens/ThinkJulia.jl
- Claudia Solis-Lemus crsl4/julia-workshop | website
- Samuel Omlin omlins/julia-gpu-course
Data visualization
- Bioinformatics, Rockefeller University RockefellerUniversity/IGV_course | website
- Hadley Wickham hadley/ggplot2-book | website
- Christian Burkhart ch-bu/ggplot2-fundamentals | website
- The Carpentries Incubator carpentries-incubator/intro-data-viz | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/publication_perfect | website
- C. Li cxli233/FriendsDontLetFriends
- Claus Wilke clauswilke/dataviz | website
- Hands-On Data Visualization HandsOnDataViz/book | website
- Carson Sievert cpsievert/plotly_book | website
- Colin Diesh cmdcolin/awesome-genome-visualization | website
- UW Interactive Data Lab uwdata/visualization-curriculum | website
- Fred Hutch Data Science Lab fhdsl/better_plots | website
- Kyran Dale Kyrand/dataviz-with-python-and-js-ed-2
Java
GNU Make
- Software Carpentry swcarpentry/make-novice | website
- Chase Lambert chaselambda/makefiletutorial | website
MATLAB/Octave
C/C++
Rust
- Google google/comprehensive-rust | website
- The Rust Programming Language rust-lang/rustlings | website
SPARQL
- SIB Swiss Institute of Bioinformatics sib-swiss/sparql-training
- BiGCaT, Department of Translational Genomics BiGCAT-UM/SPARQLTutorialBioSB2019
- SIB Swiss Institute of Bioinformatics sib-swiss/SPARQL_course | website
LaTeX
Computational methods and pipelines
Containerization
- awesome-workshop awesome-workshop/docker-singularity-hats | website
- The Carpentries Incubator carpentries-incubator/docker-introduction | website
- The Carpentries Incubator carpentries-incubator/singularity-introduction | website
- SIB Swiss Institute of Bioinformatics sib-swiss/containers-introduction-training | website
- PerMedCoE PerMedCoE/mpi-in-container
- Rami Krispin RamiKrispin/Introduction-to-Docker
- VIB Training & Conferences Program vib-tcp/containers-workshop
Galaxy
- Erasmus Medical Center ErasmusMC-Bioinformatics/galaxy-courses
- Galaxy Project galaxyproject/training-material | website
High performance computing
- The Carpentries Incubator carpentries-incubator/hpc-intro | website
- ngs-docs ngs-docs/2021-august-remote-computing | website
- cambiotraining cambiotraining/hpc-intro | website
- The Carpentries Incubator carpentries-incubator/lesson-gpu-programming | website
- PerMedCoE PerMedCoE/cluster-tutorial
- George G. Vega Yon gvegayon/appliedhpcr | website
- jhudsl jhudsl/ComputingforCancer_Informatics | website
- VIB Training & Conferences Program vib-tcp/introduction2HPC | website
Nextflow
- Sydney Informatics Hub Sydney-Informatics-Hub/hello-nextflow | website
- Sydney Informatics Hub Sydney-Informatics-Hub/customising-nfcore-workshop | website
- Firas Zemzem Zemzemfiras1/nf-core-pre-hackathon_training2025
Workflows
- Biocore@CRG biocorecrg/CoursesCRGContainersNextflowMay2022 | website
- Biocore@CRG biocorecrg/ELIXIRcontainersnextflow | website
- Biocore@CRG biocorecrg/SIBcoursenextflowNov2021 | website
- Biodata Analysis Group BiodataAnalysisGroup/intro-to-cwl-docker | website
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/nextflowseptember2021
- BovReg BovReg/nf-workshop20
- The Carpentries Incubator carpentries-incubator/snakemake-novice-bioinformatics | website
- The Carpentries Incubator carpentries-incubator/workflows-nextflow | website
- The Carpentries Incubator carpentries-incubator/workflows-snakemake | website
- Sateesh_Peri sateeshperi/nextflow_varcal | website
- Seqera nextflow-io/training | website
- VIB Technologies: Training material and software projects vibbits/nextflow-workshop | website
- SIB Swiss Institute of Bioinformatics sib-swiss/containers-snakemake-training | website
- The Carpentries Incubator carpentries-incubator/cwl-novice-tutorial | website
- Romain Feron RomainFeron/workshop-snakemake-sibdays2022
- Dockstore dockstore/bcc2020-training
- Applied Genomics Applied-Genomics-UTD/docs
- Fred Hutch Data Science Lab fhdsl/GitHubAutomationfor_Scientists | website
Image analysis
- Andrew Jahn andrewjahn/AndysBrainBook
- The Carpentries Incubator carpentries-incubator/SDC-BIDS-fMRI | website
- The Carpentries Incubator carpentries-incubator/SDC-BIDS-IntroMRI | website
- The Carpentries Incubator carpentries-incubator/SDC-BIDS-sMRI | website
- The Carpentries Incubator carpentries-incubator/SDC-BIDS-dMRI | website
- Data Carpentry datacarpentry/image-processing | website
- Dominic Waithe dwaithe/model-training
- NEUBIAS NEUBIAS/training-resources | website
- napari napari/napari-workshop-template | website
- Kyle I S Harrington kephale/napari-workshop-mandm-2023
- Chan Zuckerberg Initiative chanzuckerberg/napari-segmentation-workshop | website
Cloud computing
- Data Carpentry datacarpentry/cloud-genomics | website
- AWS Samples aws-samples/aws-hpc-tutorials | website
- Eija Korpelainen ekorpela/cloud-vm-workshop
- Lynn Langit lynnlangit/gcp-for-bioinformatics | website
Omics analysis
Genomics
- Canadian Bioinformatics Workshops bioinformatics-ca/CAN_2021
- Canadian Bioinformatics Workshops bioinformatics-ca/HTG_2021
- Papenfuss Lab PapenfussLab/IntroductionToGenomicsWorkshop
- Computational Metagenomics metagenomics/denbi-nanopore-training
- Computational Genomics with R compgenomr/book | website
- Wellcome Connecting Science WCSCourses/SARS-COV-2_B4B | website
- Functional Genomics Laboratory Functional-Genomics-Lab/Applied-Genomics | website
- cambiotraining cambiotraining/sars-cov-2-genomics | website
- Data Carpentry datacarpentry/genomics-workshop | website
- Data Carpentry datacarpentry/organization-genomics | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/ELB19F | website
- The McDonnell Genome Institute genome/bfx-workshop
- rapidspeciation rapidspeciation/biodiversitygenomicscourse
- Fred Hutch Data Science Lab fhdsl/ChoosingGenomicsTools | website
- Raphael Mourad raphaelmourad/LLM-for-genomics-training
Next generation sequencing
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/cruk-summer-school-2020 | website
- Data Carpentry datacarpentry/wrangling-genomics | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Accessingpublicgenomic_data | website
- SIB Swiss Institute of Bioinformatics sib-swiss/NGS-introduction-training | website
- SIB Swiss Institute of Bioinformatics sib-swiss/NGS-variants-training | website
- Waldron Lab at the CUNY SPH waldronlab/CNVWorkshop | website
- The Griffith Lab griffithlab/pmbio.org | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-ngsintro | website
- Institut Français de Bioinformatique (IFB) IFB-ElixirFr/EBAII | website
- Cloud-SPAN Cloud-SPAN/00genomics | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-ngsintro | website
Transcriptomics
- Biocore@CRG biocorecrg/RNAseqcourse2019 | website
- Canadian Bioinformatics Workshops bioinformatics-ca/RNA_2021
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/BulkRNASeqCourse_Nov21 | website
- The Carpentries Incubator carpentries-incubator/bioc-rnaseq | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-DGE | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-bulk-RNAseq | website
- SIB Swiss Institute of Bioinformatics sib-swiss/RNAseq-introduction-training | website
- Stefano Mangiola stemangiola/bioc2020tidytranscriptomics | website
- Xueyi Dong XueyiDong/RNAseq123workshop
- Amarinder Singh Thind amarinderthind/RNA-seq-tutorial-for-gene-differential-expression-analysis
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/BulkRNASeqCourse_March23 | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-RNAseq | website
- Health Data Science Sandbox hds-sandbox/bulkRNAseqcourse | website
- Computational Biology and Bioinformatics at UCLouvain UCLouvain-CBIO/WSBIM2122 | website
- Saez Lab saezlab/transcriptutorial | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/ADER19F | website
- Khushbu Patel kpatel427/YouTubeTutorials
- BrainOmicsCourse BrainOmicsCourse/BrainOmics2024
RNA-seq
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/BBS230B_2023 | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/rnaseq-cb321
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/RNA-seq-CB321qc_2022
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/rnaseq_overview
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-June-RNA-Seq-Analysis
- bioinformatics.ca bioinformaticsdotca/RNA_2023
- bioinformatics.ca bioinformaticsdotca/PNA_2023
- The Griffith Lab griffithlab/rnabio.org | website
- Sydney Informatics Hub Sydney-Informatics-Hub/rnaseq-workshop-2023 | website
Single-cell sequencing
- Aedin Culhane aedin/scRNAseqBasicWorkflow
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/UnivCambridgeScRnaSeqNov2021 | website
- fmicompbio fmicompbio/advscrnaseq2020
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-scRNAseq | website
- Kelly Street kstreet13/bioc2020trajectories | website
- Leiden Computational Biology Center LeidenCBC/MGC-BioSB-SingleCellAnalysis2021
- Martin Morgan mtmorgan/HCABiocTraining | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/excelerate-scRNAseq | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/single-cellsibscilifelab_2021
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-scRNAseq | website
- SIB Swiss Institute of Bioinformatics sib-swiss/single-cell-training | website
- Tidy-transcriptomics workshops tidytranscriptomics-workshops/bioc2022_tidytranscriptomics | website
- Yunshun Chen yunshun/SingleCellWorkshop
- Cellular Genomics Informatics cellgeni/scRNA.seq.course | website
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/SingleCellRNASeqJan23 | website
- OSCA Source Code Management OSCA-source/OSCA | website
- The Carpentries Incubator carpentries-incubator/scrna-seq-analysis | website
- Bioconductor Bioconductor/ISMB.OSCA | website
- Theis Lab theislab/single-cell-best-practices | website
- Health Data Science Sandbox hds-sandbox/scRNASeq_course | website
- Broad Institute broadinstitute/2020_scWorkshop | website
- Rhonda Bacher rhondabacher/ISMB2019_SingleCellTutorial
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-December-Single-Cell-RNA-Seq-Analysis
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-June-Single-Cell-RNA-Seq-Analysis
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2023-June-Advanced-Topics-in-Single-Cell-RNA-Seq-VDJ
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2020-AdvancedSingleCellRNASeq
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2022-July-Advanced-Topics-in-Single-Cell-RNA-Seq-ATAC
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2021-August-Advanced-Topics-in-Single-Cell-RNA-Seq-Trajectory-and-Velocity
- bioinformatics.ca bioinformaticsdotca/scRNA_2023
- Theis Lab theislab/single-cell-tutorial
- PAIR code PAIR-code/understanding-umap | website
- scverse scverse/scverse-tutorials | website
- CDSB ComunidadBioInfo/cdsb2021_scRNAseq | website
- Leiden Computational Biology Center LeidenCBC/MGC-BioSB-SingleCellAnalysis2022
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/SingleCellRNASeqMay23 | website
- Alex's Lemonade Stand Foundation AlexsLemonade/2023-june-training
- Alex's Lemonade Stand Foundation AlexsLemonade/2023-march-training
- SIB Swiss Institute of Bioinformatics sib-swiss/single-cell-python-training | website
- The Carpentries Incubator carpentries-incubator/bioc-scrnaseq | website
Variant analysis
- Andries Marees MareesAT/GWA_tutorial
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-variant-analysis | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-pgip | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2020-VariantAnalysisWorkshop
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2021-July-Genome-Wide-Association-Studies
- Nina Overgaard Therkildsen nt246/lcwgs-guide-tutorial
- Dipannita Ghosh digo4/Clinical-Genomics
- SIB Swiss Institute of Bioinformatics sib-swiss/cancer-variants-training | website
Enrichment analysis
ChIP-seq
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/Quantitative-ChIPseq-Workshop
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-ChIPseq | website
- Kai Hu hukai916/IntegratedChIPseqWorkshop
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Investigating-chromatin-biology-ChIPseq | website
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Intro-to-peak-analysis | website
- Denis Puthier dputhier/EBA2015ChIP-Seq
Comparative genomics
- Steven M. Van Belleghem StevenVB12/stevenvb12.github.io
- The Gulbenkian Training Programme in Bioinformatics GTPB/CPANG19 | website
- SIB Swiss Institute of Bioinformatics sib-swiss/biodiversity-bioinformatics | website
Epigenetics
- Haibo Liu haibol2016/ATACseqQCWorkshop
- bioinformatics.ca bioinformaticsdotca/EPI_2023
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2020-Epigenetics_Workshop
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-epigenomics-RTDs | website
Genome annotation
Genome assembly
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2020-GenomeAssemblyWorkshop
- ebp-nor ebp-nor/genome-assembly-workshop-2023
Metagenomics
- Canadian Bioinformatics Workshops bioinformatics-ca/MIC_2021
- Matteo Calgaro mcalgaro93/benchdamicWorkshop
- Waldron Lab at the CUNY SPH waldronlab/curatedMetagenomicDataAnalyses | website
- The Carpentries Lab carpentries-lab/metagenomics-workshop | website
- The Carpentries Lab carpentries-lab/metagenomics-organization | website
- The Carpentries Lab carpentries-lab/metagenomics-analysis | website
- The Carpentries Lab carpentries-lab/metagenomics-R | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2021-May-Microbial-Community-Analysis
- bioinformatics.ca bioinformaticsdotca/MIC_2023
- bioinformatics.ca bioinformaticsdotca/MIC_2022
- bioinformatics.ca bioinformaticsdotca/AMB_2024
Epidemiology
- Canadian Bioinformatics Workshops bioinformatics-ca/EPI_2021
- Canadian Bioinformatics Workshops bioinformatics-ca/IDE_2021
- Chloe Mirzayi cmirzayi/EpiForBioWorkshop2020 | website
- bioinformatics.ca bioinformaticsdotca/IDE_2023
- bioinformatics.ca bioinformaticsdotca/IDE_2024
- Alli Black alliblk/genepi-book | website
Microbiology
Multiomics
- Waldron Lab at the CUNY SPH waldronlab/MultiAssayWorkshop | website
- SIB Swiss Institute of Bioinformatics sib-swiss/multiomics-data-analysis-and-integration-training
- SIB Swiss Institute of Bioinformatics sib-swiss/biology-informed-multiomics-training | website
Spatial transcriptomics
- Davis Laboratory DavisLaboratory/GeoMXAnalysisWorkflow | website
- dario righelli drighelli/SpatialExperiment_Bioc2021
- Integrative Computational Biology and Multiomics Research Group ncl-icbam/ismb-tutorial-2023
- Sydney Precision Data Science Centre SydneyBioX/StatialBioc2023 | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2022-December-Spatial-Transcriptomics
- Lukas Weber lmweber/BestPracticesST | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-spatial
- SIB Swiss Institute of Bioinformatics sib-swiss/spatial-transcriptomics-training | website
- ELIXIR Europe Training elixir-europe-training/ELIXIR-SCO-spatial-omics | website
- Lukas Weber lmweber/OSTA | website
- Estella Yixing Dong estellad/BC2SpatialTranscriptomics
- Estella Yixing Dong estellad/BC2SpatialTranscriptomics
Long read sequencing
- SIB Swiss Institute of Bioinformatics sib-swiss/NGS-longreads-training | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2021-August-Iso-Seq
- Ryan Wick rrwick/Perfect-bacterial-genome-tutorial
- Tim Kahlke timkahlke/LongRead_tutorials
- Nanopore for Educators nanoporenetwork/ebook-website
Metabolomics
Proteomics
- Computational Biology and Bioinformatics at UCLouvain UCLouvain-CBIO/LSTAT2340 | website
- Health Data Science Sandbox hds-sandbox/proteomics-sandbox | website
- statOmics statOmics/PDA
- The Gulbenkian Training Programme in Bioinformatics GTPB/IBIP19 | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/PDA19 | website
- PickyBinders PickyBinders/geometric-learning-protein-structures-course
Pathways and Networks
- Canadian Bioinformatics Workshops bioinformatics-ca/PNA_2021
- Susan Coort/tutorial-network-data
- LaurenDupuis LaurenDupuis/EJP-RDHelisAcademy
Protein structure
Reproducibility and data management
Data management
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/Managing-your-research-data | website
- The Carpentries Incubator carpentries-incubator/capstone-novice-spreadsheet-biblio | website
- ELIXIR Belgium ELIXIR-Belgium/rdm-guide | website
- ELIXIR Europe elixir-europe/rdmkit | website
- ELIXIR-Norway Training ELIXIR-Norway-Training/DMP-writing-workshop | website
- OpenSciency opensciency/sprint-content | website
- Data Carpentry datacarpentry/sql-ecology-lesson | website
- Data Carpentry datacarpentry/spreadsheet-ecology-lesson | website
- SIB Swiss Institute of Bioinformatics sib-swiss/ena-seqdata-training | website
- VIB Technologies: Training material and software projects vibbits/rdm-introductory-course
- Utrecht University UtrechtUniversity/dataprivacyhandbook | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-dmp-dm-practices | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-data-publication-dm-practices | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-metadata-dm-practices | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-organising-data-dm-practices | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-open-science-dm-practices | website
- Health Data Science Sandbox hds-sandbox/RDMbiodatacourse | website
- SIB Swiss Institute of Bioinformatics sib-swiss/Introduction-FAIR-RDM-DMP | website
- BioData.pt BioData-PT/Ready4BioDataManagement | website
- posit-conf-2023 posit-conf-2023/managing-os-project | website
- jhudsl jhudsl/AdvReproducibilityinCancerInformatics | website
- Fred Hutch Data Science Lab fhdsl/EthicalDataHandlingforCancer_Research | website
- Fred Hutch Data Science Lab fhdsl/NIHDataSharing | website
- feichtingerm feichtingerm/rdmlifesciunivie
- OBOAcademy OBOAcademy/obook | website
FAIR data
- The Carpentries Incubator carpentries-incubator/fair-bio-practice | website
- The Carpentries Incubator carpentries-incubator/fair-for-leaders | website
- ELIXIR-Norway Training ELIXIR-Norway-Training/fair-dm-lifesci-june-2022
- FAIRplus FAIRplus/the-fair-cookbook | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-repository-submission-dm-practices | website
- ELIXIR Europe Training elixir-europe-training/ELIXIR-TrP-FAIR-training-handbook | website
- ELIXIR Europe Training elixir-europe-training/ELIXIR-TrP-FAIR-Converge | website
- Institut Français de Bioinformatique (IFB) IFB-ElixirFr/IFB-FAIR-bioinfo-training | website
- Institut Français de Bioinformatique (IFB) IFB-ElixirFr/IFB-FAIR-data-training
- Sergio Martínez Cuesta semacu/20180223ORCIDChemistry_Cambridge
- FAIR-by-Design-Methodology FAIR-by-Design-Methodology/FAIR-by-Design_Book | website
- The Carpentries Incubator carpentries-incubator/FAIR-research-data-coursebook | website
Reproducibility
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Tools-for-reproducible-research | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/workshop-reproducible-research | website
- The Carpentries Incubator carpentries-incubator/managing-computational-projects | website
- The Carpentries Incubator carpentries-incubator/jekyll-pages-novice | website
- The Carpentries Incubator carpentries-lab/good-enough-practices | website
- Data Carpentry datacarpentry/rr-organization1 | website
- SIB Swiss Institute of Bioinformatics sib-swiss/reproducible-analysis-training | website
- ELIXIR Europe Training elixir-europe-training/ELIXIR-TrP-ContainersPython-CodeRep | website
- ELIXIR Europe Training elixir-europe-training/ELIXIR-TrP-LiterateProgrammingR-CodeRep | website
- jhudsl jhudsl/ReproducibilityinCancer_Informatics | website
- jhudsl jhudsl/DocumentationandUsability | website
- Alex's Lemonade Stand Foundation AlexsLemonade/reproducible-research
Statistics and machine learning
Data science
- Rafael A Irizarry rafalab/dsbook
- Stephanie Hicks stephaniehicks/superwomen | website
- Hacking for Science h4sci/h4sci-course
- DataTalksClub DataTalksClub/data-engineering-zoomcamp
- Jose A Dianes jadianes/data-science-your-way | website
- Jose A Dianes jadianes/spark-r-notebooks | website
- Data Carpentry datacarpentry/python-ecology-lesson | website
- Data Science in Practice DataScienceInPractice/Site | website
- Shawn Rhoads shawnrhoads/gu-psyc-347 | website
- NBIS - National Bioinformatics Infrastructure Sweden NBISweden/module-openrefine-dm-practices | website
- Rafael A Irizarry rafalab/dsbook-part-1
- Rafael A Irizarry rafalab/dsbook-part-2
- Pablo Casas pablo14/data-science-live-book | website
- Roger D. Peng rdpeng/artofdatascience
- UC Berkeley Data 8 data-8/textbook | website
- Federico Carrone unbalancedparentheses/datascienceinjuliafor_hackers | website
- UC Berkeley Data 100 DS-100/textbook | website
- Edwin Thoen EdwinTh/ADSwR | website
- tidyverse tidyverse/datascience-box | website
- Modern Data Science with R mdsr-book/mdsr-book.github.io | website
- Lino Galiana linogaliana/python-datascientist | website
- The Turing Way the-turing-way/the-turing-way | website
- Michael Pyrcz GeostatsGuy/DataScienceInteractivePython
Statistics
- Aedin Culhane aedin/PCAworkshop | website
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/experimental-design | website
- CRUK CI Bioinformatics Core bioinformatics-core-shared-training/IntroductionToStats | website
- The Carpentries Incubator carpentries-incubator/statistical-thinking-public-health | website
- Richard McElreath rmcelreath/statrethinking2022
- SIB Swiss Institute of Bioinformatics sib-swiss/advanced-statistics
- SIB Swiss Institute of Bioinformatics sib-swiss/intro-bayesian-statistics-training | website
- SIB Swiss Institute of Bioinformatics sib-swiss/introduction-to-statistics-with-python-training
- SIB Swiss Institute of Bioinformatics sib-swiss/Introduction-to-statistics-with-R
- SIB Swiss Institute of Bioinformatics sib-swiss/statistics-and-machine-learning-training
- Richard McElreath rmcelreath/statrethinking2023
- David Dalpiaz daviddalpiaz/appliedstats | website
- cambiotraining cambiotraining/corestats | website
- David Dalpiaz daviddalpiaz/r4sl | website
- Mojtaba Barzegari mbarzegary/educational-bayesian
- SIB Swiss Institute of Bioinformatics sib-swiss/Data-analysis-in-practice
- The Gulbenkian Training Programme in Bioinformatics GTPB/PSLS22 | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/PGDH19 | website
- The Gulbenkian Training Programme in Bioinformatics GTPB/PSLS20 | website
- Paul Roback proback/BeyondMLR
- Matthew B. Jané MatthewBJane/guide-to-effect-sizes-and-confidence-intervals | website
- Richard McElreath rmcelreath/statrethinking2024
- Monash Data Fluency MonashDataFluency/r-linear | website
- Causal Inference in R r-causal/causal-inference-in-R | website
- OpenIntro OpenIntroStat/ims | website
- Allen Downey AllenDowney/ThinkBayes
- Måns Thulin mthulin/mswr-book
- A. Solomon Kurz ASKurz/StatisticalRethinkingwithbrmsggplot2andthetidyverse2_ed | website
- Allen Downey AllenDowney/ThinkStats2 | website
- Daniel Kaplan dtkaplan/Lessons-in-statistical-thinking
- Oslo Centre for Biostatistics and Epidemiology ocbe-uio/teaching_mf9130e | website
- Oslo Centre for Biostatistics and Epidemiology ocbe-uio/course_med3007 | website
- Neuromatch Academy NeuromatchAcademy/course-content | website
- Norm Matloff matloff/fastStat
Machine learning
- Canadian Bioinformatics Workshops bioinformatics-ca/MLE_2021
- The Carpentries Incubator carpentries-incubator/machine-learning-novice-python | website
- The Carpentries Incubator carpentries-incubator/machine-learning-novice-sklearn | website
- fast.ai fastai/course20 | website
- SIB Swiss Institute of Bioinformatics sib-swiss/intro-machine-learning-training
- Phillip Lippe phlippe/uvadlc_notebooks | website
- The Carpentries Incubator carpentries-incubator/ml4bio-workshop | website
- Instill AI instillai/TensorFlow-Course
- Yury Kashnitsky Yorko/mlcourse.ai | website
- fast.ai fastai/course-nlp | website
- girafe.ai girafe-ai/ml-course
- Paderborn University - LEA upb-lea/reinforcementlearningcourse_materials
- Lex Fridman lexfridman/mit-deep-learning | website
- cambiotraining cambiotraining/intro-machine-learning | website
- The Carpentries Incubator carpentries-incubator/data-science-ai-senior-researchers | website
- The Carpentries Incubator carpentries-incubator/deep-learning-intro | website
- Sven Degroeve sdgroeve/Machine-Learning-Course-2days
- Philip Bowsher philbowsher/Workshop-R-Tensorflow-Scientific-Computing
- Nicola Rennie nrennie/r-pharma-2023-tidymodels | website
- bioinformatics.ca bioinformaticsdotca/MLE_2023
- SIB Swiss Institute of Bioinformatics sib-swiss/pytorch-practical-training
- Applied Machine Learning for Tabular Data aml4td/website | website
- tidymodels tidymodels/workshops | website
- posit-conf-2023 posit-conf-2023/python-modeling
- Emil Hvitfeldt EmilHvitfeldt/smltar | website
- Navid Nobani Naviden/ML-intro-with-Python
- mlr-org mlr-org/mlr3book | website
- Inria INRIA/scikit-learn-mooc | website
- posit::conf(2024) posit-conf-2024/vetiver | website
- posit::conf(2024) posit-conf-2024/ml-python | website
- Emil Hvitfeldt EmilHvitfeldt/feature-engineering-az | website
- juexinwang juexinwang/Tutorial_ISMB2024
Artificial intelligence
- udlbook udlbook/udlbook
- Maxime Labonne mlabonne/llm-course | website
- Fred Hutch Data Science Lab fhdsl/AIforDecision_Makers | website
- Fred Hutch Data Science Lab fhdsl/AIforEfficient_Programming | website
- BiotrAIn biotrain-latam/BiotrAIn-pilot-course | website
- VIB Training & Conferences Program vib-tcp/introduction-to-generative-ai | website
- VIB Training & Conferences Program vib-tcp/genAI4training-trainingMaterial
Others
General
- Amanda Miotto amandamiotto/HackyHourBookmarks
- biodatascience biodatascience/compbio | website
- Bradley Boehmke bradleyboehmke/data-science-learning-resources
- Ming Tang crazyhottommy/getting-started-with-genomics-tools-and-resources
- Teaching materials at the Harvard Chan Bioinformatics Core hbctraining/Training-modules | website
- Genome Informatics Facility ISUgenomics/bioinformatics-workbook | website
- Melbourne Bioinformatics melbournebioinformatics/MelBioInf_docs
- Mike Lee AstrobioMike/AstrobioMike.github.io | website
- liulab-dfci liulab-dfci/bioinfo-combio
- Leighton Pritchard widdowquinn/Teaching-IBioIC-Intro-to-Bioinformatics | website
- Ujjwal Karn ujjwalkarn/DataScienceR
- Salvatore Raieli SalvatoreRa/tutorial
- Alex's Lemonade Stand Foundation AlexsLemonade/training-modules
- Andrea Telatin telatin/microbiome-bioinformatics | website
- Ronan Harrington rnnh/bioinfo-notebook | website
- Women In Bioinformatics and Data Science Latin America WomenBioinfoDataScLA/Workshops
- Common Fund Data Ecosystem nih-cfde/training-and-engagement | website
- Thomas Denecker thomasdenecker/FAIR_Bioinfo
- Eric C. Anderson eriqande/eca-bioinf-handbook
- Computational Biology and Bioinformatics at UCLouvain UCLouvain-CBIO/WSBIM1322 | website
- UC Davis Bioinformatics Core Training Page ucdavis-bioinformatics-training/2020-BioinformaticsPrerequisitesWorkshop | website
- posit-conf-2023 posit-conf-2023/devops
- BioinformaNicks BioinformaNicks/Bioinformatics-training-collection
- Sex Chromosome Lab SexChrLab/BioinformaticsIntroduction
- Harvard Informatics harvardinformatics/learning-bioinformatics-at-home
- jhudsl jhudsl/InformaticsResearchLeadership | website
- Pachter Lab pachterlab/BI-BE-CS-183-2023
- St. Jude Children's Research Hospital stjude/learngenomics.dev | website
- gladstone-institutes gladstone-institutes/Bioinformatics-Workshops | website
- UPPMAX UPPMAX/programming_formalisms | website
Owner
- Name: SIB Swiss Institute of Bioinformatics
- Login: sib-swiss
- Kind: organization
- Location: Switzerland
- Website: https://www.sib.swiss
- Repositories: 102
- Profile: https://github.com/sib-swiss
GitHub Events
Total
- Watch event: 78
- Push event: 21
- Fork event: 5
Last Year
- Watch event: 78
- Push event: 21
- Fork event: 5
Committers
Last synced: 10 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Geert van Geest | g****t@b****h | 82 |
| Geert van Geest | g****t@g****m | 39 |
| Wandrille D | w****d@h****r | 4 |
| Alexander | 3****i | 2 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| geertvangeest | r****r@f****t | 1 |
| and 42 more... | ||
Committer Domains (Top 20 + Academic)
fv-az658-774.lxhe5nczbbeupcbb3gjj1uzxzg.dx.internal.cloudapp.net: 1
fv-az658-657.lxhe5nczbbeupcbb3gjj1uzxzg.dx.internal.cloudapp.net: 1
fv-az985-616.4j5qjbg331oedl4sqeow5vdphg.cx.internal.cloudapp.net: 1
fv-az651-965.mi4nuvdbnkburlvweydx3iqepe.ex.internal.cloudapp.net: 1
fv-az586-733.tnmrllozk34ujkoifxudwjbaxh.phxx.internal.cloudapp.net: 1
fv-az578-761.ja24mmglffyuvh32icn3eyhaig.dx.internal.cloudapp.net: 1
fv-az573-21.wtj3zil33u3elnrhdhmpgjmzic.cx.internal.cloudapp.net: 1
fv-az566-498.ut545be5203uvep113pmbghppc.ex.internal.cloudapp.net: 1
fv-az523-260.sep422n2mygejbgjkrbwxz25qb.ex.internal.cloudapp.net: 1
fv-az450-198.a1eauh314bgebjzxir3ol0tv1e.gx.internal.cloudapp.net: 1
fv-az445-212.4pqpkzodfcuezcffhoqicv3h5h.cx.internal.cloudapp.net: 1
fv-az419-752.13cqfybjcexuves4lhs43phv1h.bx.internal.cloudapp.net: 1
fv-az407-337.a1ucnunlhxrehavgtqsuyqnora.cx.internal.cloudapp.net: 1
fv-az402-863.zlisyc4n25qujmhlofgsklinne.cx.internal.cloudapp.net: 1
fv-az398-517.rcmjssfzt52efjuwc1vwuezbqh.gx.internal.cloudapp.net: 1
fv-az358-457.bhr3d50t4xfe1ppt0yo02gx0lg.cx.internal.cloudapp.net: 1
fv-az189-983.4nfl1vxqu4qebnavkcv4zz5isf.cx.internal.cloudapp.net: 1
fv-az984-556.r1dl3knd25iuznqlwxibdlge2f.cx.internal.cloudapp.net: 1
fv-az888-480.pbnfqiwlmsbu5gn45r0pdzho1a.cx.internal.cloudapp.net: 1
fv-az851-654.v2bpltdhm4pedh1m2mfzcuqzjb.cx.internal.cloudapp.net: 1
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 131
- Total pull requests: 29
- Average time to close issues: 20 days
- Average time to close pull requests: 1 day
- Total issue authors: 9
- Total pull request authors: 6
- Average comments per issue: 0.56
- Average comments per pull request: 0.52
- Merged pull requests: 27
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 0
- Pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- GeertvanGeest (57)
- UnixJunkie (2)
- jarmida (2)
- g1ronn1mo (2)
- Plentycrown (1)
- JervenBolleman (1)
- BioinfGuru (1)
- vdicolab (1)
- foreveremain (1)
Pull Request Authors
- GeertvanGeest (7)
- WandrilleD (3)
- abotzki (2)
- robinengler (1)
- robertaboukhalil (1)
- hrhotz (1)
Top Labels
Issue Labels
material addition (47)
enhancement (3)
good first issue (2)
bug (1)