bam2wig - Convert bam files to wiggle files. Can be used to generate exonpart hints for AUGUSTUS.

       An exhaustive documentation can be found in the file /usr/share/doc/augustus/README.md.gz.

                                                                                                      BAM2WIG(1)

       AUGUSTUS was written by M. Stanke, O. Keller, S. König, L. Gerischer and L. Romoth.

       bam2wig - Convert bam files to wiggle files. Can be used to generate exonpart hints for AUGUSTUS.

       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

bam2wig [-r region] [-t trackname] <in.bam>