Comments (4)
I think fq
is enough imformative for fastq, but I will consider your suggestion:)
from afterqc.
Will add an option to support gzip
the output files after processing is done.
from afterqc.
Moreover, maybe it would be better to use .good.fastq instead of .good.fq? It seams to me more common.
from afterqc.
gzip output has been enabled on master branch.
For gzipped input, then the output will be also gzipped.
If the input is not gzipped, you can enable --gzip
or -z
option to force gzip compression.
gzip input --> gzip output
ungzip input --> ungzip output
ungzip input + --gzip (-z) option --> gzip output
Use --compression
to change the compression level (0~9), default is 2. The better the compression, the lower the speed.
from afterqc.
Related Issues (20)
- Removal of PCR/RNA primers HOT 1
- Tool to keep reads where all bases are above a specific quality score. HOT 2
- output gzipped data HOT 3
- ValueError: max() arg is an empty sequence HOT 3
- AterQc HOT 2
- Report
- output files are truncated
- filter only for poly-X but nothing else HOT 9
- Afterqc with pypy HOT 3
- Issue with overlap analysis HOT 4
- Read length distributon after processing HOT 7
- question about AfterQC/preprocesser.py
- AfterQC total bases calculation HOT 1
- Float division by zero in circledetector.py
- AfterQC in FASTQ joined
- Error despite creating env with 2.7 in conda
- Remove overrepresented sequences
- String index out of range. HOT 1
- bubble
- My bioconda install Python version
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from afterqc.