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GitHub / Huising-Lab / epiRomics
An R package designed to integrate and visualize various levels of epigenomic information, including but not limited to: ChIP, Histone, ATAC, and RNA sequencing. epiRomics is also designed to identify enhancer and enhanceosome regions from these data.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Huising-Lab%2FepiRomics
Stars: 2
Forks: 2
Open Issues: 4
License: mit
Language: HTML
Repo Size: 32.6 MB
Dependencies:
26
Created: over 3 years ago
Updated: 7 months ago
Last pushed: 7 months ago
Last synced: 7 months ago
Topics: atac-seq, chip-seq, chromatin-accessibiity, data-visualization, enhancer, enhancer-prediction, epigenetics, epigenomics, histone, multi-omics, r-package, regulatory-network, regulome-analysis, rna-seq, transcription-factor-binding, transcription-factors, ucsc-browser
Files
Dependencies
- R >= 4.0.0 depends
- AnnotationDbi >= 1.55.1 imports
- BiocGenerics >= 0.38.0 imports
- BiocManager >= 1.30.16 imports
- ChIPseeker >= 1.28.3 imports
- GenomeInfoDb >= 1.28.1 imports
- GenomicFeatures >= 1.44.1 imports
- GenomicRanges >= 1.44.0 imports
- Gviz >= 1.36.2 imports
- IRanges >= 2.26.0 imports
- annotatr >= 1.18.1 imports
- data.table >= 1.12.8 imports
- igraph >= 1.2.6 imports
- methods >= 4.0.2 imports
- party >= 1.3.3 imports
- plyr >= 1.8.6 imports
- rtracklayer >= 1.52.1 imports
- utils * imports
- TxDb.Hsapiens.UCSC.hg38.knownGene >= 3.13.0 suggests
- covr * suggests
- enrichplot * suggests
- knitr * suggests
- org.Hs.eg.db >= 3.13.0 suggests
- pkgdown * suggests
- rmarkdown * suggests
- testthat >= 3.0.0 suggests