This is the command bam2fastx 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
bam2fastx - tophat component converting bam directly into fastx
SYNOPSIS
bam2fastx [--fasta|-a|--fastq|-q] [--color] [-Q] [--sam|-s|-t]
DESCRIPTION
[-M|--mapped-only|-A|--all] [-o <outfile>] [-P|--paired] [-N] <in.bam>
Note: By default, reads flagged as not passing quality controls are
discarded; the -Q option can be used to ignore the QC flag.
Use the -N option if the /1 and /2 suffixes should be appended to
read names according to the SAM flags
Use the -O option to ignore the OQ tag, if present, when writing quality values
Use bam2fastx online using onworks.net services
