InesdeSantiago/align_parser: BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes
The package offers functions to process multiple ChIP-seq BAM files and detect allele-specific events. Computes allele counts at individual variants (SNPs/SNVs), implements extensive QC steps to remove problematic variants, and utilizes a bayesian framework to identify statistically significant allele- specific events. BaalChIP is able to account for copy number differences between the two alleles, a known phenotypical feature of cancer samples.
Getting started
Browse package contents
Package details |
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| Author | Ines de Santiago, Wei Liu, Ke Yuan, Martin O'Reilly, Chandra SR Chilamakuri, Bruce Ponder, Kerstin Meyer, Florian Markowetz |
| Bioconductor views | Bayesian ChIPSeq Sequencing Software |
| Maintainer | Ines de Santiago <inesdesantiago@gmail.com> |
| License | Artistic-2.0 |
| Version | 1.9.0 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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