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This repository has been archived by the owner on Jun 13, 2024. It is now read-only.
Is your feature request related to a problem? Please describe
It looks like the current cell classifier is limited to brain cells only.
Describe the solution you'd like
It would be great to use a cell classifier for a broader range of tissue types. It seems that the Garnett tool seem pretty adequate for that task https://cole-trapnell-lab.github.io/garnett/classifiers/ - and new classifiers might be created for the tissue types that are not currently covered, and then used as part of the tool.
Describe alternatives you've considered
scCatch was also considered as it contains a very broad range of cell types. However, on closer inspections, some cell signatures are derived from only one or two genes and some of the cell types don't match their tissue of origin. https://github.com/ZJUFanLab/scCATCH
The text was updated successfully, but these errors were encountered:
Is your feature request related to a problem? Please describe
It looks like the current cell classifier is limited to brain cells only.
Describe the solution you'd like
It would be great to use a cell classifier for a broader range of tissue types. It seems that the
Garnett
tool seem pretty adequate for that task https://cole-trapnell-lab.github.io/garnett/classifiers/ - and new classifiers might be created for the tissue types that are not currently covered, and then used as part of the tool.Describe alternatives you've considered
scCatch
was also considered as it contains a very broad range of cell types. However, on closer inspections, some cell signatures are derived from only one or two genes and some of the cell types don't match their tissue of origin. https://github.com/ZJUFanLab/scCATCHThe text was updated successfully, but these errors were encountered: