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esteinig / nanoq

Minimal but speedy quality control for nanopore reads in Rust :bear:
MIT License
109 stars 9 forks source link

stdout compression auto detection #42

Open esteinig opened 9 months ago

esteinig commented 9 months ago

Auto detection of compression when writing to stdout is currently not implemented. It can be activated when specifying the --output-type|-O argument. It would be better for consistency to enable auto detection on stdout.

# do not run, output not compressed
nanoq -i test.fq > test.fq.gz

# do run, output compressed
nanoq -i test.fq -o test.fq.gz

# do run, output compressed
nanoq -i test.fq -O g > test.fq.gz