bam2wig1
Convert bam files to wiggle files. can be used to generate exonpart hints for augustus.
Usage
bam2wig [-r
region]
[-t
trackname]
<in.bam>
Options
File needs to be sorted by Reference ID (i.e. target name) Use "samtools sort <in.bam>" to such effect. Use "samtools stats <in.bam> | grep 'is sorted' " to check if the file is sorted.
Parameters:
-
-r -
Allows to specify a target region, e.g. 'chr3L:10-250' This option can only be used if an index file exists, see: samtools index
-
-t -
string provided as track name
Additional documentation
An exhaustive documentation can be found in the file /usr/share/doc/augustus/README.md.gz.
Releases
4 releases since Debian 10 (Buster); the text changed 3 times.