propmapped1
Toolkit for processing next-gen sequencing data
Overview
propMapped v2.0.4
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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.
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-f -
If specified, fragments (read pairs) will be counted instead of individual reads. This option is only applicable for paired-end reads.
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-p -
If specified, only properly paired reads will be counted. This option is only applicable for paired-end reads.
History
- Debian 13 (Trixie): the text shown here
- Debian 12 (Bookworm)
- Debian 11 (Bullseye)
- Debian 10 (Buster)
- Debian 9 (Stretch)
-f since Debian 12 (Bookworm);
-i since Debian 12 (Bookworm);
-o since Debian 12 (Bookworm);
-p since Debian 12 (Bookworm).