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meyer-lab / DDMC

Clusters phosphoproteomics data based on a combination of the sequence information and abundance changes over conditions.
https://asmlab.org
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Clustering outcomes comparison #512

Closed aarmey closed 2 years ago

aarmey commented 3 years ago

@mcreixell this implements issue #508

aarmey commented 3 years ago
Screen Shot 2021-10-19 at 9 36 00 AM
aarmey commented 3 years ago

The results will obviously vary with seqWeight and cluster number. Perhaps we go with whatever we settle on for the rest of the paper?

codecov[bot] commented 3 years ago

Codecov Report

Merging #512 (d2138d3) into master (95305ea) will not change coverage. The diff coverage is 100.00%.

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@@           Coverage Diff           @@
##           master     #512   +/-   ##
=======================================
  Coverage   38.68%   38.68%           
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  Files          16       16           
  Lines        1357     1357           
=======================================
  Hits          525      525           
  Misses        832      832
Flag Coverage Δ
unittests 38.68% <100.00%> (ø)

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Impacted Files Coverage Δ
msresist/clustering.py 51.33% <100.00%> (ø)

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mcreixell commented 3 years ago

Great thanks! I used 30 clusters and a weight of 100. I removed cluster 19 because for some reason there was only one peptide in this cluster. This seemed to happen all the time with 25-35 clusters.

mcreixell commented 2 years ago

I just added the x and y tick labels and set the DDMC parameters. Is this ready to merge?

image

aarmey commented 2 years ago

Sure!