Necessity of Preparing Reference if BAM Files Input

deweylab / RSEM

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

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

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Necessity of Preparing Reference if BAM Files Input #120

Open DarioS opened 5 years ago

DarioS commented 5 years ago

I am wondering if it's necessary to prepare the reference database if I have got a BAM file for each sample created by STAR by using --quantMode TranscriptomeSAM. Since the alignment is already done and only E-M remains, there's no need for a reference, is there?