BamBam

BamBam includes numerous tools for analyzing DNA next-generation sequencing data. Tools are provided for calling SNPs and indels, identifying large scale deletions, tabulating counts of mapped reads, methylation analysis, and more.

Depends on SAMtools (http://samtools.sourceforge.net/) and BAMtools (https://github.com/pezmaster31/bamtools). Also uses BioPerl, which is included in the download tarball.

Features

call SNPs and indels
impute genotypes
build consensus sequences
tabulate counts of mapped reads (RNA-seq)
infer haplotype phasing with K-means clustering
analyze DNA methylation (bisulfite-sequencing)

Project Activity

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License

MIT License

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BamBam Web Site

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thula9578 Posted 2024-12-22

cool

Additional Project Details

Operating Systems

BSD, Linux

Intended Audience

Science/Research

Programming Language

C++, Perl

Related Categories

Perl Bio-Informatics Software, C++ Bio-Informatics Software

Registered

2013-06-26

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