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hra-workflows-celltypist-reproducibility

Reproducing Chuan's result

Running the code provided by Chuan gives the exact same results as reported in his google doc. 59,814 matching predictions and 41,141 different.

Cause of difference

In the original code the adata.var.hugo_symbol is used as the gene_name. This property is not available in datasets from other sources such as CellXGene and GTeX. Instead we use a lookup table to translate ensembl identifiers to gene names. See normalize_var_names for the logic.

After applying this change to the original code in run.py and rerunning the tool, the results matches the output of hra-workflows-runner exactly.

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