homolog.table as reference in RunAzimuth

satijalab / azimuth

A Shiny web app for mapping datasets using Seurat v4

https://satijalab.org/azimuth

GNU General Public License v3.0

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Open KalinNonchev opened 6 months ago

KalinNonchev commented 6 months ago

Hello,

RunAzimuth currently uses a hardcoded reference of the homolog.table in ConvertGeneNames which relies on an internet link and assumes an internet connection is available. https://github.com/satijalab/azimuth/blob/243ee5db80fcbffa3452c944254a325a3da2ef9e/R/azimuth.R#L103

Allowing to specify the location of the homolog.table in RunAzimuth would allow an offline execution of the function and improve flexibility.

Please let me know your opinion. Thank you in advance!

Best,

KalinNonchev commented 5 months ago

@rsatija @saketkc @andrewwbutler @keller-mark could you look into this when you have time? Thank you

KalinNonchev commented 5 months ago

@Gesmira could you look into this as well? I think it should work. Thank you