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Path:
`/api/expressions/{bel}/orthologs`
`{bel}` term example:
- `p(HGNC:AKT1)`
`{bel}` statement example:
- `p(HGNC:AKT1) => bp(GOBP:"apoptotic process")`
extra parameters
- `{namespace_preferenc…
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Hi! I hope all is going good!
I am trying to run gimme motif2factors (v0.17.1, installed through conda/mamba) on the genome of my organism to be able to run ANANSE. I set up a folder for a custom …
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Hello,
I am trying to use the i-ADHoRe tool for human and mouse using the output files from OrthoFinder. For this purpose, I created the `blast_table=Orthologs.list` file, which looks like:
ENSG0000…
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GO:0103064
inositol phosphorylceramide mannosyltransferase activity
SGD orthologs get this as IEA from Rhea.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5558548/
useful for mammalian/fungal…
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We need to pull a series of data to inform which genes to look for variants in.
There is a google doc here for reference,
https://docs.google.com/spreadsheets/d/1yX-5sfrC3vrahf4_k7-5rl4Oqzm853ollI…
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If our groups are going to be based off of phytozome groups, then i imagine we'll need to build our groups using the same program.
Edit: not [inparanoid](http://inparanoid.sbc.su.se/), thats for th…
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As a user I would like to be able to call a serach API enpoint and be returned all results _and_ all orthologs of those results. The endpoint should have the same query parameter specification as `/se…
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Dear David,
I am running some templates from biokitr and found out an issue with mouse human orthologs. My dataset is mouse but not all of genes were being annotated with the human ortholog, despit…
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Hello everyone,
I'm running orthofinder and I faced with a problem at step making gene tree (MSA). It's warning that list index out of range. and the number of ortholog is low percentage (40%).
Doe…
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Hi,
I couldn’t find any information in the documentation about the differences between the `cluster`, `linclust`, and `deepclust` commands. Based on the paper’s description, I believe that the resu…