Fabiola Curion
Fabiola Curion
Hi, @Gvaihir thanks for clarifying this! Has anyone used demuxlet to demultiplex ATAC-seq without genotype data? i.e. would freemuxlet work on ATAC? Which version of the software should I use,...
@hyunminkang Hi, can you please give more details on how exactly this should work? Can't wait to see it in action.
Hi @achamess , i used bulk rnaseq (3' sequencing) and followed GATK pipelines to do variant calling on RNASEQ. with the same parameters (I tested multiple alpha and geno-error) I...
hey @hyunminkang , any update on the version of demuxlet that does not require external genotypes? thanks!
Which of the outputs would be more useful? logs, .best files... ?
Hi jimmie, I created a repo (dem_best) with the files. In the meantime, can you at least comment on my questions please? I'd like to troubleshoot my experiments and understand...
Hi, Any update on this...? Thanks.
Hi Jimmie, yes, but the only sensible improvement comes with alpha 0 and geno-error 0,001 - using the barcodes.tsv file. Doesn't alpha 0 mean I'm not expecting doublets? (Indeed I...
@hyunminkang sorry for the terrible delay, but what do you mean by "Alpha 0 and 0.5 will be added automatically even if you do not specify." - I know that...
Hi, thanks @yimmieg for the reply. not sure about how helpful it is for others trying to do the same, @maximilianh , but these tools seem to be capable of...