Harriet Dashnow

Would it be possible to have TRGT optionally output some additional read-level metrics? For each read at a given locus: - read ID - Which allele it supports - length...

Refer to mosdepth correctly like other tools

2

Set mosdepth in pipeline_config (via install script) rather than referring to it in pipeline_stages as `$STRETCH/tools/bin/mosdepth`

Have the locus_counts script also report STR_coverage (from the bam index and additional both in pair on decoy calculations) Use counts of read where both in the pair map to...

The error below occurs when median_cov is 0. This can be caused by $EXOME_TARGET not being set, so the estimate is not restricted to the target region - [ ]...

Question about adding genotypes when writing a new VCF

8

Hi, apologies for submitting a question as an issue. I wasn't quite sure where to ask it (I couldn't find a mailing list, so please point me to it if...