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Awesome! Thank you so much for the help. When I defined `--chr-set 20 #20 autosomal (excluding chrUn)`, and the `--allow-extra-chr`, I was …
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Can I somehow do that if I am aligning to a transcriptome?
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I think `cat` and `fqname` are not necessary here. Following code should be fine:
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$ bioawk -c fastx '{ print "@"FILENAME"_"++c, $seq,"+",$qual }' test.fq | tr -s "\t" "\n"
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gotcha! thanks. this seems to be a little less straightforward than i had hoped but also not overly complicated. i simply used reheader and…
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