piosierra/pantera

which famdb library？

1690078218 opened this issue · 3 comments

1690078218 commented

Hello, I am currently using the test.gfa file you provided to reproduce the results. However, when using the Dfam TE tools, I am unsure which dataset from the famdb library to use for comparison and classification, resulting in many N (unknown bases) in the classification results. Could you please let me know which famdb library you used? I would greatly appreciate your help. Thank you!

piosierra commented

Hello, thanks for trying pantera. You can use the Astatotilapia calliptera library. Bear in mind that this is a toy gfa composed build from just one chromosome, to limit the file size, intended just as a way to check the instalation, and the model results may not match 100% the sequences in the library which have been produced with larger alignments from the whole genome.

1690078218 commented

thanks,I will try it

piosierra commented

Closed as no further comment.