home/categories/scientific-computing/pharmolix-openbiomed-skills-single-cell-foundation-model-scrna-seq-geneformer-skill-md
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single-cell-foundation-model-geneformer
Use this skill when a task involves Geneformer workflows, especially TranscriptomeTokenizer input preparation, tokenized `.dataset` generation, cell or gene classification with `Classifier`, embedding extraction with `EmbExtractor`, and in silico perturbation analysis with `InSilicoPerturber`.
maintainer
PharMolix
Updated 3/16/2026
Stars
1036
Forks
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quick start
Installation and usage
Use this skill when a task involves Geneformer workflows, especially TranscriptomeTokenizer input preparation, tokenized `.dataset` generation, cell or gene classification with `Classifier`, embedding extraction with `EmbExtractor`, and in silico perturbation analysis with `InSilicoPerturber`.
Installation
$ install --globalskills.sh
Usage
Once installed, you can use this skill by running the following command in your terminal:
skills use single-cell-foundation-model-geneformer