CNEr
Conserved Noncoding Elements (CNEs) Identification and Visualisation
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
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○.zenodo.json file
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✓DOI references
Found 1 DOI reference(s) in README -
○Academic publication links
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✓Committers with academic emails
1 of 12 committers (8.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (5.7%) to scientific vocabulary
Keywords from Contributors
Repository
Conserved Noncoding Elements (CNEs) Identification and Visualisation
Basic Info
Statistics
- Stars: 4
- Watchers: 2
- Forks: 7
- Open Issues: 12
- Releases: 0
Metadata Files
README.md
CNEr
Conserved Noncoding Elements (CNEs) Identification and Visualisation
Installation of the stable version of CNEr from Bioconductor
R
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install("CNEr")
Installation of the development version of CNEr from github
Prerequsite:
- Mac: Install "Command Line Tools" via
gccon terminal - Linux: Install a compiler and various development libraries (details vary across different flavors of Linux).
- Windows: Install Rtools.
R
devtools::install_github("ge11232002/CNEr")
Vignette
Latest vignette is available at http://rpubs.com/yang2/CNEr3
Citation:
G. Tan, D. Polychronopoulos, B.Lenhard:
CNEr: A toolkit for exploring extreme noncoding conservation.
PLoS Comput Biol. 2019 Aug 26;15(8):e1006940. doi: 10.1371/journal.pcbi.1006940. eCollection 2019 Aug.
Owner
- Name: Ge Tan
- Login: ge11232002
- Kind: user
- Location: Basel
- Company: Novartis Institute of Biomedical Research
- Repositories: 6
- Profile: https://github.com/ge11232002
GitHub Events
Total
- Issues event: 1
- Watch event: 1
- Issue comment event: 6
- Fork event: 1
Last Year
- Issues event: 1
- Watch event: 1
- Issue comment event: 6
- Fork event: 1
Committers
Last synced: about 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Ge Tan | g****n@m****m | 305 |
| Ge Tan | g****9@i****k | 35 |
| Herve Pages | h****s@f****g | 16 |
| Dan Tenenbaum | d****a@f****g | 15 |
| Nitesh Turaga | n****a@g****m | 14 |
| dpolychr | d****r@g****m | 9 |
| Hervé Pagès | h****s@f****g | 2 |
| vobencha | v****n@r****g | 2 |
| vobencha | v****a@g****m | 2 |
| Hervé Pagès | h****b@g****m | 1 |
| LiNk-NY | m****9@g****m | 1 |
| Marc Carlson | m****n@f****g | 1 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- bioconductor 289,640 total
- Total dependent packages: 1
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 1
bioconductor.org: CNEr
CNE Detection and Visualization
- Homepage: https://github.com/ge11232002/CNEr
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/CNEr/inst/doc/CNEr.pdf
- License: GPL-2 | file LICENSE
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Latest release: 1.43.0
published about 1 year ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.4 depends
- BiocGenerics * imports
- Biostrings >= 2.33.4 imports
- DBI >= 0.7 imports
- GO.db >= 3.3.0 imports
- GenomeInfoDb >= 1.1.3 imports
- GenomicAlignments >= 1.1.9 imports
- GenomicRanges >= 1.23.16 imports
- IRanges >= 2.5.27 imports
- KEGGREST >= 1.14.0 imports
- R.utils >= 2.3.0 imports
- RSQLite >= 0.11.4 imports
- S4Vectors >= 0.13.13 imports
- XVector >= 0.5.4 imports
- annotate >= 1.50.0 imports
- ggplot2 >= 2.1.0 imports
- methods * imports
- parallel * imports
- poweRlaw >= 0.60.3 imports
- readr >= 0.2.2 imports
- reshape2 >= 1.4.1 imports
- rtracklayer >= 1.25.5 imports
- tools * imports
- BSgenome.Drerio.UCSC.danRer10 * suggests
- BSgenome.Ggallus.UCSC.galGal3 * suggests
- BSgenome.Hsapiens.UCSC.hg19 * suggests
- BSgenome.Hsapiens.UCSC.hg38 * suggests
- BiocStyle * suggests
- Gviz >= 1.7.4 suggests
- TxDb.Drerio.UCSC.danRer10.refGene * suggests
- knitr * suggests
- rmarkdown * suggests
- testthat * suggests