The regions of interest pipeline results in many subfolders. I wrote a script to bring all of the results together in a single file. The script is workflow/roi/summary-table.py After you complete the regions of interest pipeline, you can
[roi-file] is by default roi.tsv from the end of workflow/scan. If you changed this folder, e.g. you gave the regions of interest names, then point to that file.
[hap-or-snp] says either you want the analysis results hap of the haplotype-based estimates for frequency and location, or the analysis results snp of the best-ranked variant and its frequency and location.
The output of the pipeline in workflow/scan is roi.tsv. This could be your final analysis if you only care about a selection scan. The prior comment is about hard sweep modeling as well.
The regions of interest pipeline results in many subfolders. I wrote a script to bring all of the results together in a single file. The script is
workflow/roi/summary-table.py
After you complete the regions of interest pipeline, you can[roi-file] is by default
roi.tsv
from the end ofworkflow/scan
. If you changed this folder, e.g. you gave the regions of interest names, then point to that file.[hap-or-snp] says either you want the analysis results
hap
of the haplotype-based estimates for frequency and location, or the analysis resultssnp
of the best-ranked variant and its frequency and location.