Filipe G. Vieira
Filipe G. Vieira
Same issue here, since MultiQC calculates the fraction of mapped reads through the ratio of `after_filtering:total_reads` and `before_filtering:total_reads`. In the above example, we'd get `18.07% (1176646 / 6510970)`, when it...
Any news on supporting `VCFv4.3` and `BCFv2.2` (both for read and write)?
Maybe this thread can help: https://stackoverflow.com/questions/46813371/meaning-of-the-benchmark-variables-in-snakemake
Any update on this issue?
Isn't it a bit counter-intuitive that masked regions count for the alignment score? I mean, the main reason people mask them is because they are difficult to align and can...
ok... but right now VSEARCH has options for: ``` --match INT score for match (2) --mismatch INT score for mismatch (-4) ``` what about adding an option to set the...
I guess you can use dereplication with option `--minuniquesize` after your clustering, no?
I was thinking after the initial run and piping between the two vsearch commands. something like: `vsearch --clust_fast input.fas --sizeout --consout - | vsearch --derep_fulllength - --minuniquesize 10 --output test.out`...
@scapella did you end up implementing this? If not, I guess you can just add an argument where the user can specify the input format, and make it mandatory if...
@nh13, thanks for the changes. It seems to work fine. The only thing would be that it saves the UMI with the N: ``` RX:Z:ACGAGCA-GAAGTGN ``` I don't think it...