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Published 20 hours ago • verified publisher icon nf-core

Add `sourmash index` option

Open olgabot opened this issue 4 years ago • 1 comments

While I'm not doing a lot of sourmash compare (see https://github.com/nf-core/kmermaid/issues/75) I may still want to make an SBT index.

Reasons:

  • SBT indices are easy to add a single new sample to, comparison matrices are not
  • SBT matrices may (eventually..) be localized and fed into KNN graph algorithm using tools like UMAP (https://github.com/dib-lab/sourmash/pull/925)

olgabot avatar May 13 '20 17:05 olgabot

for this issue, is sourmash index done on all the sketches from peptides, nucleotides, and ska sketch results?

pranathivemuri avatar May 14 '20 02:05 pranathivemuri