From Genome Analysis Wiki
→Programs: Add comments to convert for switching between '=' and bases in the sequence.
The bam executable has the following functions.
* [[C++ Executable: bam#validate|validate - Read and Validate a SAM/BAM file]]
* [[BamUtil: convert|convert - Read a SAM/BAM file and write as a SAM/BAM file]]
* [[C++ Executable: bam#dumpHeader|dumpHeader - Print SAM/BAM header]]
* [[C++ Executable: bam#splitChromosome|splitChromosome - Split BAM by Chromosome]]