I would like to calculate the overall average coverage for all individuals in 1000 Genomes in different parts of the genome and I am interested in both the exome alignments and the low coverage aligments. I know I can write a script that will go through all the BAM files for all individuals several times, but is there an easier (and faster) way to do this? Are there any compiled files available with this information? I know about the DP field in the VCF files, but it only represent the depth for the low coverage alignments at the specific variant sites.
Question: Overall average coverage for different regions in 1000 Genomes
3.7 years ago by
M. Möller • 30
M. Möller • 30 wrote:
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