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WeiliWw / VirHostMatcher-Net

VirHostMatcher-Net: A network-based computational tool for predicting virus-host interactions.
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Run the analysis having already calculated the CRISPR values #19

Closed miczuppi closed 2 years ago

miczuppi commented 2 years ago

Hi, I am running VirHostMatcher-Net on multiple fasta files. After having calculated for each of them the CRISPR values, my analysis was interrupted. I was wondering if there is a way to proceed with the analysis using the CRISPR values that I have , without having to calculate them again.

Thank you for your time, Michele

WeiliWw commented 2 years ago

Hi Michele,

Yes, the CRISPR results are stored in the intermediate directory - what you specified by -i in the command (default ./intermediate_res). The CRISPR results for each query fasta are in a separate file with the original fasta file's name.

miczuppi commented 2 years ago

Hi, Thank you for the quick reply. So I can run VirHostMatcher-Net again using the CRISPR results as input?

Thank you for your time, Michele

WeiliWw commented 2 years ago

I thought you wanted to grab the results for your own analysis.

If you just want to run VirHostMatcher-Net again and skip the CRIPSR calculation, you can first comment out lines 40-42 in /src/crispr.py (the lines with crispr_call = NcbiblastnCommandline(...)) and then re-run the same command you used before.

miczuppi commented 2 years ago

Ok, thank you very much.

Michele