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rcannood / SCORPIUS

Linear trajectory inference for single-cell RNA-seq
http://rcannood.github.io/SCORPIUS/
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`reduce_dimensionality` on expression matrix filtered for highly variable genes? #40

Open lucygarner opened 1 year ago

lucygarner commented 1 year ago

Hi,

I was wondering whether you had compared SCORPIUS results using either the expression matrix for all genes or an expression matrix filtered for highly variable genes as input to reduce_dimensionality() as is often used for e.g. PCA?

Best wishes, Lucy

hahia commented 1 year ago

I also wonder about this. Can we use highly variable genes or DEG between cluster as input to reduce_dimensionality()?