Brent Pedersen

can't you just do `brew install brewsci/bio/mosdepth` ?

I see. I'll try to get an OSX build going in the next few weeks.

hi, I have a build here: https://github.com/brentp/mosdepth/actions/runs/101966135 you can download the artifact (it's a zip file) then extract and `chmod +x the `mosdepth_macos-10.15` binary. if i hear that this is...

thanks Devon!

hi, you can do this by passing a bed file of just the chromosomes you want. You can make it from the fai (fasta index) something like this: ``` awk...

Thanks for reporting. It looks like this is due to a change in the bioconda recipe in v0.3.3. I have asked there how to proceed.

yeah, I've noticed this as well. I'll have a look today. Picard and bedtools are doing actual coverage calculations across the whole bam (I'm pretty sure, anyway) while covmed is...

@hdashnow would you give one of the attached binaries a try (I have to gzip to attach here so you'll have to unzip and chmod +x). This should give a...

and a caveat is that goleft is likely to be inaccurate for exome or targetted, but I'll improve that a bit more in the future.

Hi. it's likely OK with those messages. It just means that there were no alignments to those contigs/chroms, they are likely small un placed chromosomes or decoys. I should probably...