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bioconductor-rmspc

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Multiple Sample Peak Calling

Installation

To install this package, run one of the following:

Conda
$conda install bioconda::bioconductor-rmspc

Usage Tracking

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Description

The rmspc package runs MSPC (Multiple Sample Peak Calling) software using R. The analysis of ChIP-seq samples outputs a number of enriched regions (commonly known as "peaks"), each indicating a protein-DNA interaction or a specific chromatin modification. When replicate samples are analyzed, overlapping peaks are expected. This repeated evidence can therefore be used to locally lower the minimum significance required to accept a peak. MSPC uses combined evidence from replicated experiments to evaluate peak calling output, rescuing peaks, and reduce false positives. It takes any number of replicates as input and improves sensitivity and specificity of peak calling on each, and identifies consensus regions between the input samples.

About

Summary

Multiple Sample Peak Calling

Last Updated

Dec 22, 2023 at 23:32

License

GPL-3

Total Downloads

7.1K

Supported Platforms

noarch