davidaknowles
sQTL annotation with leafviz
Hi! I'm using leafcutter and FastQTL for sQTL mapping and I generated annotation files with gencode.annotation.gtf and leafviz. I'd like to annotate the significant sQTL/introns I identified. Correct me if I'm wrong, but it seems the leafviz annotation is customized for DS analysis. I wonder if there's a better way, instead of adjusting the prepare_results.R code, to annotate sQTL results (i.e. annotated, cryptic 5', ...). Thanks!
Hi Cindy,
we don't have that feature right now, but if you're interested in visualising your sQTLs then you can look into running sqtlviztools, a rough R package for doing this. I'm not currently maintaining it but it should give you the code to set up a sQTL app: https://github.com/jackhump/sqtlviztools
