lh3 / fermi-lite

Standalone C library for assembling Illumina short reads in small regions
MIT License
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Can fermi-lite be made strand specific ? #18

Open rpadmanabhan opened 1 year ago

rpadmanabhan commented 1 year ago

Is there any parameter or easy code changes that could make fermi-lite strand specific ? I am happy to make the changes if you think this is straightforward and had some pointers, I tried removing some of the revcomp lines in the source code but the resulting assembly was worse off.

In my use-case I know all my input sequences are from the same strand therefore I do not want their reverse complement to be tried for overlaps.

Thank you