https://github.com/bioconductor-source/timirgen
Science Score: 26.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
○.zenodo.json file
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✓DOI references
Found 2 DOI reference(s) in README -
○Academic publication links
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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (6.1%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: R
- Default Branch: devel
- Size: 30.3 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
TimiRGeN R Package
author: "Krutik Patel, Bioinformatician at Newcastle University UK"
email: nkp68@newcastle.ac.uk
date: "09 04 2022"
The TimiRGeN package is made for researchers that wish to analyse time series microRNA-mRNA data sets after differential expression analysis. TimiRGeN offers users the ability to integrate the multi-omic data, perform functionally analysis, and to visualise this. Data can easily be exported to cytoscape or pathvisio.
Please read the vignette for more information . Follow the instructions on the PathvisioGRNguide found in the issues of the github repository for help in constructing networks and further development of GRNs.
Citation
citation: K Patel, S Chandrasegaran, I M Clark, C J Proctor, D A Young, D P Shanley, TimiRGeN: R/Bioconductor package for time series microRNA-mRNA integration and analysis, Bioinformatics, 2021;, btab377, https://doi.org/10.1093/bioinformatics/btab377
Owner
- Name: (WIP DEV) Bioconductor Packages
- Login: bioconductor-source
- Kind: organization
- Email: maintainer@bioconductor.org
- Website: https://bioconductor.org
- Repositories: 1
- Profile: https://github.com/bioconductor-source
Source code for packages accepted into Bioconductor
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Dependencies
- Mfuzz * depends
- MultiAssayExperiment * depends
- R >= 4.3 depends
- FreqProf * imports
- RCy3 * imports
- biomaRt * imports
- clusterProfiler * imports
- dplyr >= 0.8.4 imports
- ggdendro * imports
- gghighlight * imports
- ggplot2 * imports
- gplots * imports
- grDevices * imports
- graphics * imports
- gtools >= 3.8.1 imports
- igraph >= 1.2.4.2 imports
- rWikiPathways * imports
- readxl * imports
- reshape2 * imports
- scales * imports
- stats * imports
- stringr >= 1.4.0 imports
- tidyr >= 1.0.2 imports
- BiocManager * suggests
- kableExtra * suggests
- knitr >= 1.27 suggests
- org.Hs.eg.db * suggests
- org.Mm.eg.db * suggests
- rmarkdown * suggests
- testthat * suggests