There are 2 conventions used in the human reference genome for labelling chromosomes: 1, 2, 3 etc and chr1, chr2, chr2 etc. CoverView needs to support both, and have an agreed standard for inputting and outputting chromosome labels. This could be configured by one or more command-line options.
Internal use of the labels must be consistent with the convention used in the input BAM and reference FASTA files otherwise run-time errors will occur.
There are 2 conventions used in the human reference genome for labelling chromosomes: 1, 2, 3 etc and chr1, chr2, chr2 etc. CoverView needs to support both, and have an agreed standard for inputting and outputting chromosome labels. This could be configured by one or more command-line options.
Internal use of the labels must be consistent with the convention used in the input BAM and reference FASTA files otherwise run-time errors will occur.