neurogenomics/EpiCompare: Comparison, Benchmarking & QC of Epigenomic Datasets
EpiCompare is used to compare and analyse epigenetic datasets for quality control and benchmarking purposes. The package outputs an HTML report consisting of three sections: (1. General metrics) Metrics on peaks (percentage of blacklisted and non-standard peaks, and peak widths) and fragments (duplication rate) of samples, (2. Peak overlap) Percentage and statistical significance of overlapping and non-overlapping peaks. Also includes upset plot and (3. Functional annotation) functional annotation (ChromHMM, ChIPseeker and enrichment analysis) of peaks. Also includes peak enrichment around TSS.
Getting started
Browse package contents
Package details |
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| Bioconductor views | ATACSeq ChIPSeq DNaseSeq Epigenetics FunctionalGenomics Genetics MultipleComparison QualityControl |
| Maintainer | |
| License | GPL-3 |
| Version | 1.9.10 |
| URL | https://github.com/neurogenomics/EpiCompare |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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