deweylab / RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
http://deweylab.biostat.wisc.edu/rsem/
GNU General Public License v3.0
408 stars 118 forks source link

rsem-parse-alignments Lacks Adequate Documentation #66

Open DarioS opened 7 years ago

DarioS commented 7 years ago

There's no description of the flags or synopsis of what it does.

$ rsem-parse-alignments -h
Usage : rsem-parse-alignments refName imdName statName alignF read_type [-t fai_file] [-tag tagName] [-q]

In contrast, $ rsem-calculate-expression -h contains well-written documentation of all of the available options.