FastqCount
Fastq reads, bases, N Bases, Q20, Q30, GC summary with high performance
Usage:
$ FastqCount [-phred value] [-o out.tsv] <input1.fastq input2.fastq.gz>
output (tsv) header: Total reads Total bases N bases Q20 Q30 GC
note:
-
When input is -, read standard input;
-
"pigz -dc *.fastq.gz | FastqCount -" is recommended for gzipped file(s).
-o string: output summary to a tsv file, default: stdout
-phred int: set phred value (default 33)
Output example (tsv):
Reads |
Bases |
N-bases |
Q20 |
Q30 |
GC |
1.00 M |
0.15 G |
0.00% |
96.69% |
91.59% |
44.20% |
1000000 |
150000000 |
5099 |
145037238 |
137378352 |
66294072 |