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Hi,
Thank you for your tool. We would like to ask where the data for protein DmkA was obtained from. We didn't find the protein sequence of DmkA in NR database. And the proteins annotated as DmkA u…
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According to the README, the hmms/iron directory can be found within FeGenie's main repository. I was assuming that you meant the github repository, but I can't find it there. Can you point me in the …
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Hey! I do have another question!
After annotating my MAGs, I saw that FeGenie didn't find any transport-related clusters in any of my MAGs, which wouldn't make sense biologically (I have, among o…
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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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Dear Arkadiy Garber,
I just watched your FeGenie lesson and tutorial in the BVCN and, first of all, I wanted to thank you for the nice tool (and teaching materials) you & your colleagues released!
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Hi,thanks for your good jobs. I want to identify the iron-sulfur proteins of MAGs. I see that you will update this function in the near future. When will it be updated? is there a tool for this? thank…
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Hi,
Thanks for the pipeline. It made my work easy. I am interested in identifying iron siderophore synthesis in my metagenomic samples. When I run the fegenie pipeline without **--all_results** the …
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Hi Arkadiy,
Just a quick question -- are the outputs in the geneSummary files showing **all** encoded HMM hits and their ORFs or are these hits that are both encoded **and** have coverage in the s…
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Hi,
I am encountering the following error when I am trying to run the software. Any ideas on how to resolve it?
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Hi,
I have several hits in the geneSummary.csv file witn EMPTY in the protein sequence column. What does that mean? I provided ORFs to analyse but am unsure now if I can use the results.
iron_…