metagenomeSeq
Statistical analysis for sparse high-throughput sequencing
Science Score: 23.0%
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
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○Academic publication links
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✓Committers with academic emails
2 of 17 committers (11.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (9.9%) to scientific vocabulary
Keywords from Contributors
Repository
Statistical analysis for sparse high-throughput sequencing
Basic Info
- Host: GitHub
- Owner: HCBravoLab
- Language: R
- Default Branch: master
- Size: 14.1 MB
Statistics
- Stars: 69
- Watchers: 15
- Forks: 21
- Open Issues: 31
- Releases: 0
Metadata Files
README.md
metagenomeSeq
Statistical analysis for sparse high-throughput sequencing
metagenomeSeq is designed to determine features (be it Operational Taxanomic Unit (OTU), species, etc.) that are differentially abundant between two or more groups of multiple samples. metagenomeSeq is designed to address the effects of both normalization and undersampling of microbial communities on disease association detection and the testing of feature correlations.
To install the latest release version of metagenomeSeq:
S
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install("metagenomeSeq")
To install the latest development version of metagenomeSeq:
S
install.packages("devtools")
library("devtools")
install_github("Bioconductor-mirror/metagenomeSeq")
Author: Joseph Nathaniel Paulson, Hisham Talukder, Mihai Pop, Hector Corrada Bravo
Maintainer: Joseph N. Paulson : jpaulson at jimmy.harvard.edu
Website: www.cbcb.umd.edu/software/metagenomeSeq
Owner
- Name: HCBravoLab
- Login: HCBravoLab
- Kind: organization
- Repositories: 22
- Profile: https://github.com/HCBravoLab
GitHub Events
Total
- Issues event: 3
- Watch event: 4
- Issue comment event: 1
- Member event: 1
- Push event: 1
- Pull request event: 2
- Fork event: 1
Last Year
- Issues event: 3
- Watch event: 4
- Issue comment event: 1
- Member event: 1
- Push event: 1
- Pull request event: 2
- Fork event: 1
Committers
Last synced: about 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Joseph Paulson | j****n@u****u | 237 |
| Hector Corrada Bravo | h****a@g****m | 59 |
| Dan Tenenbaum | d****a@f****g | 18 |
| Domenick Braccia | d****a@u****u | 12 |
| Nitesh Turaga | n****a@g****m | 6 |
| Jayaram Kancherla | j****a@g****m | 5 |
| Herve Pages | h****s@f****g | 4 |
| vobencha | v****a@g****m | 2 |
| vobencha | v****n@r****g | 2 |
| Hervé Pagès | h****s@f****g | 2 |
| krlong68 | 9****8 | 1 |
| Kayla-Morrell | k****l@r****g | 1 |
| LiNk-NY | m****9@g****m | 1 |
| Marc Carlson | m****n@f****g | 1 |
| Sonali Arora | s****a@f****g | 1 |
| krlong68 | k****6@g****m | 1 |
| paulsoj1 | p****h@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 72
- Total pull requests: 24
- Average time to close issues: about 2 months
- Average time to close pull requests: 17 days
- Total issue authors: 49
- Total pull request authors: 6
- Average comments per issue: 2.19
- Average comments per pull request: 0.29
- Merged pull requests: 17
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 3
- Pull requests: 1
- Average time to close issues: N/A
- Average time to close pull requests: 7 days
- Issue authors: 3
- Pull request authors: 1
- Average comments per issue: 0.33
- Average comments per pull request: 0.0
- Merged pull requests: 1
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- jnpaulson (14)
- ninaxhua (4)
- CarlyMuletzWolz (4)
- nate-d-olson (2)
- kfontanez (2)
- lshep (2)
- kthlnktng (2)
- willowsblade (1)
- csmiguel (1)
- Ivy-ops (1)
- K-Pimentel (1)
- marion-b (1)
- TsStef (1)
- handibles (1)
- LiNk-NY (1)
Pull Request Authors
- jnpaulson (14)
- dombraccia (5)
- krlong68 (3)
- grimbough (2)
- jmwagner (1)
- nate-d-olson (1)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- Biobase * depends
- R >= 3.0 depends
- RColorBrewer * depends
- glmnet * depends
- limma * depends
- methods * depends
- Matrix * imports
- Wrench * imports
- foreach * imports
- gplots * imports
- grDevices * imports
- graphics * imports
- matrixStats * imports
- parallel * imports
- stats * imports
- utils * imports
- BiocGenerics * suggests
- IHW * suggests
- annotate * suggests
- biomformat * suggests
- gss * suggests
- interactiveDisplay * suggests
- knitr * suggests
- testthat >= 0.8 suggests
- vegan * suggests
- bioconductor/bioconductor_docker devel build