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PROPMAPPED(1) User Commands PROPMAPPED(1)

NAME

propmapped - toolkit for processing next-gen sequencing data

DESCRIPTION

propMapped v2.0.4

Calculate the proportion of mapped reads/fragments.

Usage:

./prommapped [options] -i <file>

Required arguments:

An input file containing read mapping results. Both SAM or BAM formats are supported.

Optional arguments:

Name of output file including mapping statistics.
If specified, fragments (read pairs) will be counted instead of individual reads. This option is only applicable for paired-end reads.
If specified, only properly paired reads will be counted. This option is only applicable for paired-end reads.

AUTHOR


This manpage was written by Alexandre Mestiashvili for the Debian distribution and
can be used for any other usage of the program.

March 2023 propmapped 2.0.3