Turn of GSVA filtering for method ssGSEA
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@kvittingseerup-7956
Last seen 7 weeks ago
European Union

One usage of ssGSEA is to evaluate the abundance of multiple gene-sets in the same sample to figure out which gene set is more abundant.

For those purposes would it be possible to turn off the use of .filterFeatures. Or at least prevent .filterFeatures from removing features based on missing values?

Cheers Kristoffer

GSVA • 119 views
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Robert Castelo ★ 2.7k
@rcastelo
Last seen 12 weeks ago
Barcelona/Universitat Pompeu Fabra

Hi, the internal function .filterFeatures() does not remove any feature (row in the input expression data matrix) when the parameter method="ssgsea".

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That is good to know. Thanks for the quick reply!

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