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License: Apache License 2.0
Basic filtering scripts for various mutation calling tools
License: Apache License 2.0
Hi @rhshah
Is there a work around for scipy.weave in filter_pindel.py, looks like it is not part of the latest scipy package?
https://github.com/scipy/weave
Thank you for the tool.
Best,
Dear, Ronak H
I used your scripts(https://github.com/rhshah/basicfiltering) for filtering variant call from Pindel (Tumor-normal paired). The vcf output of Pindel (pindel2vcf) don't have DP (depth of coverage) field, only AD (allele depth). But the script from basicfiltering has as argument option or choose filter by DP, AD and VAF. Where VAF (AD of each allele/ DP). I would like to know if you use VAF information and how to extract.
Thanks for your attention,
Leandro
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