RNAsik
RNAsik: A Pipeline for complete and reproducible RNA-seq analysis that runs anywhere with speed and ease - Published in JOSS (2018)
Science Score: 98.0%
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
Found .zenodo.json file -
✓DOI references
Found 4 DOI reference(s) in README and JOSS metadata -
✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
7 of 11 committers (63.6%) from academic institutions -
✓Institutional organization owner
Organization monashbioinformaticsplatform has institutional domain (platforms.monash.edu) -
✓JOSS paper metadata
Published in Journal of Open Source Software
Repository
RNAsik - more than just a pipeline
Basic Info
- Host: GitHub
- Owner: MonashBioinformaticsPlatform
- License: apache-2.0
- Language: TeX
- Default Branch: master
- Homepage: https://monashbioinformaticsplatform.github.io/RNAsik-pipe/
- Size: 11.4 MB
Statistics
- Stars: 13
- Watchers: 15
- Forks: 6
- Open Issues: 26
- Releases: 2
Metadata Files
README.md
RNAsik-pipe
This is fully SIcK way towards differential gene expression !
RNAsik-pipeimplemented in BigDataScript (bds) language.
IF( SuperQuickStart ) {
BASH
RNAsik -fqDir https://bioinformatics.erc.monash.edu/home/kirill/sikTestData/rawData/fqFiles.txt \
-align star \
-fastaRef ftp://ftp.ensembl.org/pub/release-91/fasta/saccharomyces_cerevisiae/dna/Saccharomyces_cerevisiae.R64-1-1.dna_sm.toplevel.fa.gz \
-gtfFile ftp://ftp.ensembl.org/pub/release-91/gtf/saccharomyces_cerevisiae/Saccharomyces_cerevisiae.R64-1-1.91.gtf.gz \
-counts \
-paired \
-all
}
ELSE RNAsik-website
Owner
- Name: Monash Bioinformatics Platform
- Login: MonashBioinformaticsPlatform
- Kind: organization
- Email: bioinformatics.platform@monash.edu
- Location: Monash University, Australia
- Website: https://platforms.monash.edu/bioinformatics/
- Repositories: 84
- Profile: https://github.com/MonashBioinformaticsPlatform
JOSS Publication
RNAsik: A Pipeline for complete and reproducible RNA-seq analysis that runs anywhere with speed and ease
Authors
Monash Bioinformatics Platform, Monash University
Monash Bioinformatics Platform, Monash University
Monash Bioinformatics Platform, Monash University
Monash Bioinformatics Platform, Monash University
Editor
Pjotr Prins
Tags
RNA-seq gene expression pipeline bioinformaticsGitHub Events
Total
- Fork event: 1
Last Year
- Fork event: 1
Committers
Last synced: 7 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| serine | t****l@g****m | 476 |
| Kirill Tsyganov | k****t@r****u | 40 |
| Andrew Perry | a****y@p****m | 22 |
| Kirill Tsyganov (Monash University) | k****t@u****u | 16 |
| Kirill Tsyganov (Monash University) | k****t@u****u | 8 |
| serine | t****l@g****m | 6 |
| Kirill Tsyganov (Monash University) | k****t@m****u | 6 |
| serine | t****l@g****m | 4 |
| Stuart Archer | s****r@m****u | 3 |
| Nick Wong | n****n@u****u | 1 |
| Kirill Tsyganov | k****t@m****u | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 45
- Total pull requests: 13
- Average time to close issues: 3 months
- Average time to close pull requests: 5 months
- Total issue authors: 9
- Total pull request authors: 4
- Average comments per issue: 1.64
- Average comments per pull request: 0.92
- Merged pull requests: 5
- 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
- pansapiens (22)
- serine (8)
- methylnick (5)
- andrewyatz (3)
- alexyfyf (3)
- tseemann (1)
- steveandroulakis (1)
- SpeculativeCynic (1)
- stu2 (1)
Pull Request Authors
- pansapiens (7)
- stu2 (3)
- methylnick (2)
- alexyfyf (1)