This is the command propmapped 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
propmapped - calculate the proportion of mapped reads/fragments
USAGE
prommapped [options] -i <file>
Required arguments:
-i <string>
An input file containing read mapping results. Both SAM or BAM formats are
supported.
Optional arguments:
-o <string>
Name of output file including mapping statistics.
-f If specified, fragments (read pairs) will be counted instead of individual reads.
This option is only applicable for paired-end reads.
-p If specified, only properly paired reads will be counted. This option is only
applicable for paired-end reads.
Use propmapped online using onworks.net services
