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EricDeveaud avatar EricDeveaud commented on June 27, 2024

NB in order to check I change all the 0.0 in HMP.species.txt to random values
this "fixed" the only finite values

this yield to the next error which is:

  File "/opt/gensoft/exe/hclust2/1.0.0/venv/lib/python3.8/site-packages/hclust2-1.0.0-py3.8.egg/EGG-INFO/scripts/hclust2.py", line 74, in inverse
AttributeError: module 'matplotlib.cbook' has no attribute 'iterable'

regards

Eric

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saras224 avatar saras224 commented on June 27, 2024

Hey @EricDeveaud
Does anybody know how hclust2 determine the --ftop n features based on --fperc.. in the example they have used --fperc value 99 but I want to know the logic behind that. Why specifically 99? why not 100? How to decide the percentile value?

Thanks

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EricDeveaud avatar EricDeveaud commented on June 27, 2024

see: https://forum.biobakery.org/t/hclust2-py-error-distance-matrix-finite-values/1732/2

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