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takaram / kofam_scan

CLI tool to annotate genes with KOfam
https://www.genome.jp/tools/kofamkoala/
MIT License
66 stars 11 forks source link

Parsing output file #12

Closed timregan closed 4 years ago

timregan commented 4 years ago

Has anybody else had issues when trying to read the output files?

They are not always fixed-width. Specifically, a high value in the "thrshld" column will push the next columns ("score", "E-Value" etc.) down a space. This makes it impossible to read correctly (see line 6 in the example). Trying to use at least x2 spaces as a delimiter doesn't work either as some columns have only one space between them.

I would be so grateful if anybody had a solution! :) output_file.txt

timregan commented 4 years ago

I have only just seen the format option for tsv outputs. This would have saved a lot of head-scratching... Thanks and take care! Tim