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  1. IGB
  2. IGBF-4315

K means clustering strategy on pol data

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
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          Description

          GOAL: To attempt to implement one of the various K-mean clustering strategies on Kelsey's Pollinated dataset.

          The reason: Her committee asked. This is to mostly silence them. Or maybe we will get some really cool insight!

          The input will be the deseq2 normalized data (not DSeseq results). No idea what tools we mgiht try yet. This ticket is to come up with a plan of attack. New tickets needed for actual implementation.

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              bbendick Brandon Bendickson added a comment -

              Several literature sources tell us that K-means is not effective for timecourse/multisample rna seq data, but to use model based clustering instead. Shifting to a tool called mClust in R

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              bbendick Brandon Bendickson added a comment - Several literature sources tell us that K-means is not effective for timecourse/multisample rna seq data, but to use model based clustering instead. Shifting to a tool called mClust in R

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                • Assignee:
                  bbendick Brandon Bendickson
                  Reporter:
                  robofjoy Robert Reid
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