DOI: 10.18129/B9.bioc.ChIC  

This package is for version 3.17 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see ChIC.

Quality Control Pipeline for ChIP-Seq Data

Bioconductor version: 3.17

Quality control (QC) pipeline for ChIP-seq data using a comprehensive set of QC metrics, including previously proposed metrics as well as novel ones, based on local characteristics of the enrichment profile. The package provides functions to calculate a set of QC metrics, a compendium with reference values and machine learning models to score sample quality.

Author: Carmen Maria Livi

Maintainer: Carmen Maria Livi <carmen.livi at>

Citation (from within R, enter citation("ChIC")):


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PDF R Script ChIC
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biocViews ChIPSeq, QualityControl, Software
Version 1.19.0
In Bioconductor since BioC 3.7 (R-3.5) (5.5 years)
License GPL-2
Depends spp, R (>= 3.6)
Imports>= 1.11.1), caTools, methods, GenomicRanges, IRanges, parallel, progress, randomForest, caret, grDevices, stats, utils, graphics, S4Vectors, BiocGenerics, genomeIntervals, Rsamtools
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