User: gaurav.diwan

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gaurav.diwan20
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3 months ago
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g***********@bioquant.uni-heidelberg.de

Posts by gaurav.diwan

<prev • 4 results • page 1 of 1 • next >
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Comment: C: Error running OMA standalone at HOG computation step
... Hi Adrian, This finally worked! Although if I may point out, I also had to copy the file `hog_bottom_up/gethogs/file_manager.py` to the folder `.venv/lib64/python3.6/site-packages/gethogs/` so that the program uses this modified file. A couple of days ago, I had tried to add the `csv.field_size_li ...
written 11 weeks ago by gaurav.diwan20
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Comment: C: Error running OMA standalone at HOG computation step
... Hi Adrian, Thanks a lot for your answer. I tried running the HOG computation step using the second command you suggested and it still shows me the same csv_reader related error (too many fields). I can share the Output folder with you. Would you like the entire folder or just a few files from it? A ...
written 11 weeks ago by gaurav.diwan20
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Comment: C: Error running OMA standalone at HOG computation step
... Hi Alex, Thanks a lot for your answer! Well, the FASTA headers of my custom genome files come from Uniprot and contain a bunch of details. However, I used the following command to check how many columns each line of Output/Map-SeqNum-ID.txt file has: awk --field-separator="\t" '{print NF}' Out ...
written 12 weeks ago by gaurav.diwan20
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Error running OMA standalone at HOG computation step
... I have been trying to run OMA standalone using a few genomes downloaded from the OMA browser and then adding a couple of my custom genomes. All the steps of OMA standalone including All-vs-All computations, pairwise orthologs etc have successfully finished. However, I have consistently faced the sam ...
orthologs oma hog error written 12 weeks ago by gaurav.diwan20 • updated 11 weeks ago by adrian.altenhoff890

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