wrapper and parses for bam readcount
tl;dr
x='/rsrch2/iacs/ngs_runs/1411_sarcomatoid/tmap/bams/tmp.bamreadcount'
bed has columns:
chr start end ref_allele alt_allele
# parse the output with:
bam_readcount.parse(x, samplename = "sample1", bed)
sahilseth/bamreadcountr
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