Entering edit mode
2.6 years ago
BioNoobie ▴ 20
I tried to use maf2vcf to convert and used the vcf2vcf with remap function, but while doing that in the final file all data is missing (except for #CHROM POS ID REF ALT QUAL FILTER GT:AD:DP ) How do I convert MAF files from TCGA GRCh38 to hg19 without losing the information?
why do you want do convert to a reference genome that is outdated for 7 years now?
Hi, I am trying to use the tool probabilistic2020 which uses hg19 reference for which I need in hg19
What about using lifit-over tool? all you need is chromosome-start-end for each variations.