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huihui1126 / drugSim-pathway

Drug similarity evaluation based on pathway fingerprints
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Better file extensions #5

Closed cthoyt closed 3 years ago

cthoyt commented 3 years ago

Several files throughout the repository, including the two data files currently hosted (https://github.com/huihui1126/drugSim-pathway/blob/main/combine_score.txt and https://github.com/huihui1126/drugSim-pathway/blob/main/inflamationresponse.txt) as well as several files that appear to be generated by the scripts

https://github.com/huihui1126/drugSim-pathway/blob/6042830395bbf4dfbdea8b72dd4de11bac25e269/PathSim.py#L90, https://github.com/huihui1126/drugSim-pathway/blob/6042830395bbf4dfbdea8b72dd4de11bac25e269/extracRelation.pl#L80

and others in the perl file appear to be tabular data, but use the txt extensions. These should be changed to tsv or csv where applicable for several reasons:

  1. GitHub can pretty display content with correct file extensions
  2. It helps users better understand what these files are
  3. It's pedantically more correct
huihui1126 commented 3 years ago

Thanks for your suggestion. The input and output file of main program have change to csv extension for better reading for authors.