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In Sep 2022 GSEA released a new Mouse MSigDB (v2022.1.Mm) list of genes.
This doesn't seem to be incorporated in the [`msigdbr`](https://github.com/igordot/msigdbr) package, which still uses ortholo…
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The memory requirements of the compiler seems to have spiked in the 2.0.0 release. For instance, to compile the Selventa Full Kam with Orthology information I needed to use 10 gigs of memory.
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How old is the uniref database that CheckM2 is currently using? I see a reference to 3rd june 2018 in the main publication but am not sure if it has been updated since?
Am I correct in assuming tha…
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Model organisms, especially the laboratory mouse Mus musculus, provide useful knowledge about human diseases. I am studying human gene-HPO term annotations and want to utilize phenotype annotations of…
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_From @pgaudet on November 23, 2017 12:23_
Hello,
Following up on #13004, we need to implement a rule to prevent propagation of GO:0001618 virus receptor activity annotations.
It may make sen…
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I thought I'd come up with a great solution to allowing Ortholog Phenotypes, showing a checkbox to include ortholog phenotypes as well.
Unfortunately, there's no way to get to the checkbox if th…
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It appears that orthologous relationships are only added to nodes present in the network at the start of Phase III. geneAbundances added to the network via "gene scaffolding" are not getting connected…
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Is it possible to add an ability to create an orthology group with 1 gene from each species? (via selection longest or most similar to other genes in group if more than 1 gene is presented from specie…
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Hi Daniel!
I encountered the following error when using the test data example with show_homologene() and ortholog_resource:
> ```r
> > ortholog_resource + …