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Would anyone find it useful for BridgeDb to support the [NCBI Taxonomy](https://www.ncbi.nlm.nih.gov/taxonomy) for identifying organisms? Some time ago, I mapped each of our supported organisms to its…
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XAO uses the number system BA1=PA3
Is it not less confusing to standardize on PA1-6/7?
I believe there are problems with the def of BA1 (PA3) below:
\* It says "first pharyngeal/branchial" - to be …
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Dear authors,
Thank you very much for making this great tool.
I got the following error while running Generate Protein Embeddings.ipynb using my protein fasta.
```
!python map_gene_symbol_to_prote…
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This is an "epic" issue, just as a placeholder to reference various efforts towards standardizing synonym type definitions across the OBO Foundry
## Background
These are the two precursor discus…
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# Description
The `homologues` step writes files into two subfolders:
`target-inputs/homologue/gene-dictionary` and `target-inputs/homologue/homologies`
The files in the `gene-dictionary` folder ar…
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Related to #1382, we need to cover scenarios originally mentioned #1317. We also need behave tests for each of them.
| search issue | query | Top result must be | results must include | status |
|…
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Hi sir,
I'm in a hurry to solve this problem,thanks!
Two xml files are got from blast and diamond separated.
The b2gpipe code is
`java -cp ./b2g4pipe/*:/b2g4pipe/ext/*: es.blast2go.prog.B2GAnn…
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We need to following patterns for XenBase:
increased mobility (PATO_0000051)
decreased mobility (PATO_0002283)
immobile (PATO_0000300)
Example:
cilium in the lung
Range probably cellular …
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Hi, deal developer
I have a question about general mode when traing logistic mode. In my thinking, the TF-specific mode is based on 237 TFs from REMAP. I take TF A as a example.
The 1 represent **…
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while loading __monarchkg_v2024-09-12/results/kg_nodes.csv__ into a neo4j db (version 5.24.2) i received this error:
```
// Import nodes from kg_nodes.csv in batches
CALL {
…