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run_pbaa.sh questions #13

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chunlinxiao opened this issue Apr 13, 2021 · 0 comments

chunlinxiao commented Apr 13, 2021

Just trying to understand your CoSA pipeline better and use it correctly, in CoSA/vcf/run_pbaa.sh,

the script contains "PRIMERS=/data/sarscov2_primers.fasta ", it seems the primers file not used in the code, perhaps we can ignore?
for whole genome sequencing, can we assume PBAA_REF and GENOME the same?

thanks

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