clc2tsv
Format
cg clc2tsv ?options? ?infile? ?outfile?
Summary
Converts output from the clc bio assembly cell snp caller to tsv
format
Arguments
- infile
- file to be converted, if not given, uses stdin. File may be
compressed.
- outfile
- write results to outfile, if not given, uses stdout
Options
- -coverage coverage
- variants at position with coverage below this value will be
considered unsequenced: variant data is present in output, but the
"sequenced" column gets value "u" (default: 0)
- -minfreq cutoff
- Position with a frequency >= cutoff (default: 0.25)
will be considered variant: the "sequenced" column gets
value "v"; if lower "sequenced" will be
"r"
Category
Format Conversion