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new orthologs added
- [x] SJAG_03640 SPBP19A11.02c
- [x] SJAG_01396 SPAPB2B4.06
- [x] SJAG_01849 SPBC651.12c
[main 790dc9e] more orthologs
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It is often useful to annotate orthologous genes to leverage algorithms designed for human/mouse data.
Let's assume we have an anndata object with mouse gene ids in `var_names`. I would like to ha…
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A user should be able to convert a search for genes into a search for orthologs of a result set. This can be done by faceting on the epl_gene_tree field and then rewriting the query as a disjunction o…
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Hi,
I based on your websit "http://www.informatics.jax.org/homology.shtml" and find three files of Complete List of Vertebrate Homology Classes (plain text), Complete List of Human and Mouse Homolo…
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... for example: https://domainworld.uni-muenster.de/programs/domrates/
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Looks like a problem dealing with multi-transcript genes. The orthologs are getting stored correctly for transcript 1 but the code is trying to store them again for transcript 2, and failing. The or…
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Hrd1 complex yeast
pombe Systematic ID pombe gene name Budding yeast orthologs Human orthologs
SPAC1565.08 cdc48 CDC48 VCP
SPBC365.08c der1 DER1,DFM1 DERL1,DERL2,DERL3
SPBC17D11.02c hrd1 HRD1 …
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hi all
Any advice will be greatly appreciated.
I am looking at a bunch of bacterial genomes and there are certain genes that seem to slowly dissapear from isolates that were collected at a late…
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- [x] Seurat
- [ ] Signac
- [x] anndata
- [x] SingleCellExperiment
- [x] SummarisedExperiment
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Dear Agora group,
I am reconstructing ancestral gene orders using the AGORA software. The main challenge I am facing is that I have identified hundreds of CARs with decreasing numbers of genes. The n…