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Error code from run through conda installation. Input was a faa file with ORFs from Anvio.
(magiclamp) sean-mini-server:2022_PCC_ManuscriptWork sean_server$ MagicLamp.py LithoGenie -bin_dir bins -b…
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I Found that LithoGenie can predict more cyc2 gene than FeGenie. Why? Which one I can believe? Moreover, I found the results of FeGenie were very unstable. I can predict a cyc2_cluster3 from a genome …
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Hi,
Thanks for making this neat piece of software- its exactly what I need. However, I haven't gotten it to work yet due to the following error:
> LithoGenie.py -bin_dir /path/to/bin/files/ -bi…
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Can you please provide a table of the origins of each HMM? For the ones designed by you, can you provide documentation on how the HMMs were created, alignments, and confidence testing/decision tree fo…
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Hi,
I am trying to track down the source of HMMs for each gene hit within my dataset after running LithoGenie, and I was able to find most of them in the supplementary info for this paper: https://ww…
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Hi again,
This is not an issue, but I have a conceptual question about using (or not using) the `--norm` flag within the different genies in MagicLamp, and I realize it might be research question d…