Science Score: 10.0%
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
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○.zenodo.json file
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○DOI references
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○Academic publication links
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✓Committers with academic emails
8 of 23 committers (34.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (4.1%) to scientific vocabulary
Keywords from Contributors
bioconductor-package
gene
bioconductor
bioinformatics
ontology
similarity-measurement
recount
tumor-mutational-burden
tumor-heterogeneity
loh
Last synced: 11 months ago
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JSON representation
Repository
Inferring CNV from Single-Cell RNA-Seq
Basic Info
Statistics
- Stars: 632
- Watchers: 39
- Forks: 176
- Open Issues: 230
- Releases: 9
Created over 10 years ago
· Last pushed over 1 year ago
Metadata Files
Readme
License
README.md
Subclustering
Subclustering resolution is one of the primary settings that will need to be adjusted in most runs to avoid oversplitting. The tutorial below explains how it works and details about it can also be found on the wiki.
Documentation
Full documentation
Visit project wiki for InferCNV documentation.
Infercnv video tutorial
A video tutorial giving on overview of infercnv features and how to run an analysis can be found below (click on the image):
Owner
- Name: Broad Institute
- Login: broadinstitute
- Kind: organization
- Location: Cambridge, MA
- Website: http://www.broadinstitute.org/
- Twitter: broadinstitute
- Repositories: 1,083
- Profile: https://github.com/broadinstitute
Broad Institute of MIT and Harvard
GitHub Events
Total
- Issues event: 23
- Watch event: 67
- Issue comment event: 60
- Push event: 3
- Gollum event: 1
- Fork event: 10
- Create event: 1
Last Year
- Issues event: 23
- Watch event: 67
- Issue comment event: 60
- Push event: 3
- Gollum event: 1
- Fork event: 10
- Create event: 1
Committers
Last synced: almost 3 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| GeorgescuC | G****C | 373 |
| Brian Haas | b****s@g****m | 334 |
| Christophe Georgescu | c****g@g****m | 95 |
| M. Brown | 3****p | 83 |
| TimothyTickle | t****e@g****m | 64 |
| Eric Weitz | e****z@b****g | 29 |
| Nitesh Turaga | n****a@g****m | 16 |
| M.Brown | m****8@b****u | 11 |
| yuzhong1997 | t****d@o****m | 7 |
| matt-sd-watson | m****n@u****a | 4 |
| jlchang | j****g@b****g | 3 |
| bistline | b****e@b****g | 3 |
| Philip Lijnzaad | p****d@g****m | 3 |
| jgould | j****d@b****g | 2 |
| J Wokaty | j****y@s****u | 2 |
| Lori Shepherd | l****d@r****g | 2 |
| J Wokaty | j****y | 2 |
| Eric Weitz | e****z@g****m | 1 |
| arsenb | a****b@b****g | 1 |
| Yun YAN | P****y | 1 |
| Zhengtao xiao | Z****o@o****m | 1 |
| root | r****t@i****l | 1 |
| brownmp | m****n@b****g | 1 |
Committer Domains (Top 20 + Academic)
broadinstitute.org: 6
ip-172-31-48-59.ec2.internal: 1
roswellpark.org: 1
sph.cuny.edu: 1
uhn.ca: 1
bu.edu: 1
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 107
- Total pull requests: 3
- Average time to close issues: 21 days
- Average time to close pull requests: N/A
- Total issue authors: 92
- Total pull request authors: 2
- Average comments per issue: 1.04
- Average comments per pull request: 0.0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 25
- Pull requests: 0
- Average time to close issues: about 16 hours
- Average time to close pull requests: N/A
- Issue authors: 22
- Pull request authors: 0
- Average comments per issue: 0.48
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- r-osorio (3)
- mbihie (3)
- parkjooyoung99 (2)
- seongguheo (2)
- smukeji (2)
- gboscagli (2)
- FuduanPeng (2)
- jemorlanes (2)
- shunyasanuma (2)
- Urja25 (2)
- jjacob12 (2)
- nicolognoato (1)
- qiuhuijiajia (1)
- shubham-koirala (1)
- pmarzano97 (1)
Pull Request Authors
- nilchia (2)
- DC-Jade (1)
Top Labels
Issue Labels
enhancement (1)
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- bioconductor 126,129 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 6
- Total maintainers: 1
bioconductor.org: infercnv
Infer Copy Number Variation from Single-Cell RNA-Seq Data
- Homepage: https://github.com/broadinstitute/inferCNV/wiki
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/infercnv/inst/doc/infercnv.pdf
- License: BSD_3_clause + file LICENSE
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Latest release: 1.24.0
published about 1 year ago
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Average: 4.7%
Downloads: 14.0%
Maintainers (1)
Last synced:
11 months ago
Dependencies
DESCRIPTION
cran
- R >= 4.0 depends
- BiocGenerics * imports
- HiddenMarkov * imports
- Matrix * imports
- RANN * imports
- RColorBrewer * imports
- SingleCellExperiment * imports
- SummarizedExperiment * imports
- ape * imports
- argparse * imports
- caTools * imports
- coda * imports
- coin * imports
- digest * imports
- doParallel * imports
- dplyr * imports
- edgeR * imports
- fastcluster * imports
- fitdistrplus * imports
- foreach * imports
- futile.logger * imports
- future * imports
- ggplot2 * imports
- gplots * imports
- grDevices * imports
- graphics * imports
- gridExtra * imports
- igraph * imports
- methods * imports
- parallel * imports
- parallelDist * imports
- phyclust * imports
- reshape2 * imports
- rjags * imports
- stats * imports
- tidyr * imports
- utils * imports
- BiocStyle * suggests
- knitr * suggests
- rmarkdown * suggests
- testthat * suggests