other versions
- jessie-backports 1.5.1+dfsg-4~bpo8+1
- stretch 1.5.1+dfsg-4
- testing 1.6.2+dfsg-1
- unstable 1.6.3+dfsg-1
QUALITYSCORES(1) | User Commands | QUALITYSCORES(1) |
NAME¶
qualityScores - a component of subread suiteUSAGE¶
qualityScores [options] -i <input_file> -o <output_file> Required arguments:- -i <string>
- Name of input file including read data. The default format is Fastq.
- -o <string>
- Name of output file that is a text file including Phred scores for each read base.
--gzFASTQinput Input file is in gzipped Fastq
format.
- --BAMinput
- Input file is in BAM format.
- --SAMinput
- Input file is in SAM format.
- --first-end
- Use only first reads in paired-end data. Only applicable for paired-end BAM/SAM input.
- --second-end
- Use only second reads in paired-end data. Only applicable for paired-end BAM/SAM input.
--counted-reads <int> Total number of reads to be
extracted from the input
- file. 10,000 by default.
--phred-offset <33|64> refer to subread
aligner.
June 2017 | qualityScores 1.5.1+dfsg-4~bpo8+1 |