SheepwormJM
SheepwormJM
Just to update the above. I pulled out the genes at N0, N2 and N6 (the last contained my species, the middle my species cf another species of interest and...
Did you find an answer @jmpolinski? I was wondering about this yesterday too. Thanks, Jenni
Hi Lucas, Thanks. It's the queue window, yes. This was my command: ``` grenedalf fst --sync-path ~/input.java.sync --reference-genome-fasta-file ~/genomic.fa --sample-name-list ~/Expt_3_sample_names.txt --filter-sample-min-count 2 --filter-sample-min-coverage 100 --filter-sample-max-coverage 100 --window-type queue --window-queue-count...
Hi Lucas, Thanks for this explanation! I was chatting with someone about it yesterday, and he had pointed out that as I was using a sync file, which I had...
Thanks so much Lucas! I'll take a look at this! 🙂 ------------------------------------------------------------------------------------------------------------------------------- Please note that I don’t expect you to read or respond to this email outside your normal working...
Ah sorry, I had totally missed the #92 issue raised by FischHa. From looking at their data I'm assuming that loading a MSA might work to get it into a...
Thanks Emmanuel.
Hi Ben, Thanks. The sequence ID related to the read probably would be the aim. I've now found a way using BioPython to take the ASV output by DADA2 and...
Update to above: I ran the mosaic and found that it missed some very obvious SVs in the data (visualised in bam files on JBrowse2), and seemed to be mis-identifying...
Thanks @fritzsedlazeck will give it a go now.