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qiime2 / q2-vsearch

vsearch plugin for QIIME 2
BSD 3-Clause "New" or "Revised" License
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Expose `FeatureMap` data when clustering #93

Open wasade opened 1 year ago

wasade commented 1 year ago

Improvement Description A user on the QIIME 2 forum was requesting detail on what features map to specific subjects from closed reference clustering. The cluster-features-closed-reference action does not presently expose the UC mapping output that would provide this detail. @gregcaporaso suggested use of FeatureMap as a means to represent these data.

Current Behavior The mapping detail is not provided.

Proposed Behavior Modify the relevant actions, including cluster-features-closed-reference, to allow saving the FeatureMap.

References

  1. @gregcaporaso suggested migrating FeatureMap to q2-types, see qiime2/q2-types#298
  2. https://forum.qiime2.org/t/introducing-greengenes2-2022-10/25291/35
lizgehret commented 1 year ago

Hey @wasade, we just added FeatureMap to q2-types so this is now available in a development environment and will also be available in QIIME 2 2023.9. Do you have bandwidth and/or interest in modifying the associated actions to provide mapping detail as a new output?

colinbrislawn commented 3 months ago

forum x-ref requesting this: https://forum.qiime2.org/t/i-used-de-novo-clustering-and-now-i-want-to-identify-which-sequences-belong-to-each-cluster/30844