Closed ssnn-airr closed 7 years ago
Original comment by Jason Vander Heiden (Bitbucket: javh, GitHub: javh).
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Original comment by Jason Vander Heiden (Bitbucket: javh, GitHub: javh).
Syncing the word size and masking between ublast and blastn seems to have resolved most of the differences. Still some testing to do, but I'm going to go with the blastn solution for now.
Dockerfiles have also been updated with blast+ installs.
Original report by Jason Vander Heiden (Bitbucket: javh, GitHub: javh).
vsearch doesn't provide local alignment methods, so we cannot replace usearch with vsearch in AssemblePairs-reference. We need an alternative.
Binaries for BWA and swipe and linux only, so that unfortunately invalidates them. Perhaps the SSW implementation in scikit-bio?