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Allow AssemblePairs-reference to use gapped references

Issue #46 resolved
Jason Vander Heiden created an issue

Should be able to ungap the reference sequences, build the usearch or blastn database, and then pass the database into the alignment tool, instead of requiring users to maintain a set of both a gapped and ungapped references.

Comments (2)

  1. Jason Vander Heiden reporter

    Modifications to rebuild database are done. Just need to ungap sequence upon load, test what usearch and makeblastdb do with gapped references, and pass the build through an ungapped temp file, if required.

  2. Jason Vander Heiden reporter

    Done in 7cf3180 via reference file preprocessing step added to presto.Applications.makeUBlastDb and presto.Applications.makeBlastnDb.

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Type
enhancement
Priority
major
Status
resolved
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