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GSVA error with ssGSEA #43
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This problem occurs because the GSVA package deprecated the GSVA function in version 1.52.2 or higher. I updated irGSEA to make irGSEA (version 3.2.6) suitable for both old and new versions of GSVA. In addition, in version 3.2.6irGSEA, irGSEA.merge and irGSEA.score functions were added to facilitate us to integrate different scoring matrices in the same Seurat object. You can try it.
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Thank you for your fast reply! How can I download the version 3.2.6 of irGSEA? In this repository, it says that 2.1.5 is the most current one. |
After updating to R 4.4.0 and using irGSEA.score with method = "ssGSEA", I get the following error:
Error: Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct; use a method-specific parameter object (see '?gsva').
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