rnaVariantCalling high-quality SNPs for hg38 in documentation

[yunkaig]

Hi there,

I am downloaded input files according to the documentation here: https://gagneurlab-drop.readthedocs.io/en/latest/prepare.html#files-to-download

For the high-quality variants, I can see there is one file for SNPs and one for INDELs for hg19, but for hg38 both files are for INDELs. Is there are particular reason for that?

Many thanks,
Yunkai

[vyepez88]

Hi Yunkai, for hg38, the files are downloadable here: https://gatk.broadinstitute.org/hc/en-us/articles/360035890811-Resource-bundle

[yunkaig]

Hi @vyepez88,

Sorry I might not have been clear. I saw this on the documentation page:

For hg19 there is one file for indel and another for snp.

But for hg38 both files are for indels.

Is that how it is supposed to be?

Many thanks!