This is the command bamtools that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
bamtools - toolkit for manipulating BAM (genome alignment) files
SYNOPSIS
bamtools [--help] COMMAND [ARGS]
DESCRIPTION
BamTools facilitates research analysis and data management using BAM files. It copes with
the enormous amount of data produced by current sequencing technologies that is typically
stored in compressed, binary formats that are not easily handled by the text-based parsers
commonly used in bioinformatics research.
OPTIONS
convert
Converts between BAM and a number of other formats
count Prints number of alignments in BAM file(s)
coverage
Prints coverage statistics from the input BAM file
filter Filters BAM file(s) by user-specified criteria
header Prints BAM header information
index Generates index for BAM file
merge Merge multiple BAM files into single file
random Select random alignments from existing BAM file(s), intended more as a testing
tool.
resolve
Resolves paired-end reads (marking the IsProperPair flag as needed)
revert Removes duplicate marks and restores original base qualities
sort Sorts the BAM file according to some criteria
split Splits a BAM file on user-specified property, creating a new BAM output file for
each value found
stats Prints some basic statistics from input BAM file(s)
See 'bamtools help COMMAND' for more information on a specific command.
Use bamtools online using onworks.net services
