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kr-colab / FILET

Software for detecting introgression using supervised machine learning
GNU General Public License v3.0
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Groups of fasta input files #9

Open tcd11221 opened 1 year ago

tcd11221 commented 1 year ago

Hello, there are a few things I don't quite understand about this software, and I'd appreciate some answers! Now I used the example files in the package for training, and step5 started using my own data for analysis, but how did I get the fasta files for pop1 and pop2? Are they separated by chromosome after converting to pseudogenome using vcf? Thank you very much for your help.

andrewkern commented 1 year ago

hi there-- fasta files should be supplied one chromosome at a time. example fasta input can be found here: https://github.com/kr-colab/FILET/tree/master/dataToClassify

as for how to create fasta files-- yes I imagine you could create pseudochromosomes from a vcf

tcd11221 commented 1 year ago

Thank you for your help, I solved the problem, good luck with your life!