search

xihaoli / STAARpipeline-Tutorial

The tutorial for performing single-/multi-trait association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using FAVORannotator, STAARpipeline and STAARpipelineSummary
GNU General Public License v3.0
21 stars 17 forks source link

#SNVs per case/control? #48

Open kwdoyle opened 4 months ago

kwdoyle commented 4 months ago

Hello,

For the gene-centric analyses, is there any possible way to obtain the number of SNVs per case and control samples? The output from the summary functions only lists the total number of SNVs found per gene+category. I cannot seem to locate where this SNV count is actually generated in any of the functions to even try to modify this myself.

xihaoli commented 2 months ago

Hi @kwdoyle,

Thank you for reaching out. We have been creating additional helper functions that are relevant to your request. Currently, they are being tested before being integrated into the STAARpipeline/STAARpipelineSummary packages. Could you please contact us via email for a detailed discussion?

Best, Xihao