Support for 3-column BED files

[Alexander Peltzer]

Official standard in UCSC is 3-column (required) + optional columns. Could you please add support for BED format with 3-columns only? As long as its always 3-column within one BED file, this should be fine.

We're using QualiMap to calculate coverage on a set of targets only, so this shouldn't ruin things for others, too. In case you need the other information, you could still use 6-column BED format. What do you think?

Cheers, Alex

[Konstantin Okonechnikov]

Hi Alex, thanks for suggestion! Actually, I also had this idea about standard BED support. This is now implemented. The version with update is available for download: https://bitbucket.org/kokonech/qualimap/downloads/qualimap-build-24-07-17.tar.gz Would be great if you can perform quick test as well.

[Alexander Peltzer]

Thanks Konstantin! Are you releasing a stable version anytime soon as well? We will try this out ;-)

[Konstantin Okonechnikov]

Great! Release will be a bit later, closer to middle/end of August due to other ongoing improvements.