How can I get the gene expression only with uniquely mapped reads by rsem-calculate-expression?

deweylab / RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

http://deweylab.biostat.wisc.edu/rsem/

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How can I get the gene expression only with uniquely mapped reads by rsem-calculate-expression? #186

Open zjuzexian opened 2 years ago

zjuzexian commented 2 years ago

Hi all, I just want to know whether rsem can provide a parameter that only take uniquely mapped reads into calulation? Some thing just like grep -v "XS:i" in bowtie2 flags and grep 'NH:i:1' | grep -v 'ZS:i' in hisat2?

Thanks