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BamBam

Tools for genomic analysis

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Description

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.

BamBam Web Site

Categories

Bio-Informatics

License

MIT License

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)

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Additional Project Details

Intended Audience

Science/Research

Programming Language

Perl, C++

Registered

2013-06-26

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