LoL-align: probability scoring, output, clustering and CI - #595
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lasseReifenrath wants to merge 1 commit into
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LoL-align: probability scoring, output, clustering and CI#595lasseReifenrath wants to merge 1 commit into
lasseReifenrath wants to merge 1 commit into
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Add the LoL-align alignment mode (--alignment-type 3) end to end: - Homology-probability classifier (LoLAlignProbability) with a 39-feature MLP; store the probability in result.score (*10000) and the normalized LoL-score in result.eval. - tmalign.cpp: self-hit handling for the LoL-align path. - convertalis: register --alignment-type (forwarded by easy-search) and rescale score back to [0,1] on output for the bits/prob/raw columns, the default and empty format-output tab, BLAST+len (-m 2) and HTML (-m 3). SAM (-m 1) stays on the bit-score path. - StructureCluster: dispatch --alignment-type 3 in the cascaded clustering workflow (main alignment + reassignment steps). - Regression: bump submodule to the updated LoL-align search targets (SFAM 0.448889, FOLD 0.27193). - mac-arm64 CI: install rust via rustup.rs (Homebrew rustup no longer ships rustup-init) and export cargo to PATH for the block_aligner build. - README: add the LoL-align publication and document the new parameters.
Collaborator
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Hello! Did you mean to upload the .gitignore file as well? |
Contributor
Author
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No, this was by mistake |
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Add the LoL-align alignment mode (--alignment-type 3) end to end: