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fix: update COG category mapping#108

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siddC wants to merge 1 commit intomasterfrom
update-cog
Open

fix: update COG category mapping#108
siddC wants to merge 1 commit intomasterfrom
update-cog

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@siddC siddC commented Mar 9, 2022

Update COG mapping. We originally used X for genes with no COG category but that is unfortunately incorrect (see https://www.ncbi.nlm.nih.gov/research/cog/cogcategory/X/#). X is actually a COG category which deals with the mobilome (prophages, transposons, and the like).

I've updated the cog_dict in gene_util to reflect this, and added - to represent genes with no COG annotation

@siddC siddC requested a review from avsastry March 9, 2022 04:27
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codecov Bot commented Mar 9, 2022

Codecov Report

Merging #108 (1c57c39) into master (77537f6) will not change coverage.
The diff coverage is 75.00%.

Impacted file tree graph

@@           Coverage Diff           @@
##           master     #108   +/-   ##
=======================================
  Coverage   54.23%   54.23%           
=======================================
  Files          17       17           
  Lines        3321     3321           
  Branches      642      643    +1     
=======================================
  Hits         1801     1801           
  Misses       1395     1395           
  Partials      125      125           
Impacted Files Coverage Δ
src/pymodulon/gene_util.py 0.00% <ø> (ø)
src/pymodulon/core.py 74.80% <50.00%> (ø)
src/pymodulon/plotting.py 87.01% <100.00%> (ø)
src/pymodulon/util.py 69.90% <100.00%> (ø)

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