Slingshot - residual

Slingshot - residual_variance

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Adrian Johnson ▴ 330

@adrian-johnson-2728

Last seen 4.1 years ago

Dear Bioconductor, slingshot experts,

While capturing top differential expression genes, I am using the following function. I am using seurat object (seu). I am unable to find where I can find residual_variance. Could someone help. Thanks Adrian

top_hvg <- HVFInfo(seu) %>%
  mutate(., bc = rownames(.)) %>%
  arrange(desc(residual_variance)) %>%
  top_n(300, residual_variance) %>%
  pull(bc)

Error: object 'residual_variance' not found

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ADD COMMENT • link updated 4.1 years ago by Martin Morgan 25k • written 4.1 years ago by Adrian Johnson ▴ 330

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I'm sorry, I'm not sure I understand how this is related to Slingshot. All the functions used here seem to be from either Seurat or dplyr.

According to the HVFInfo documentation, that function returns a data frame with means, dispersion, and scaled dispersion, but it makes no mention of residual variance.

ADD REPLY • link 4.0 years ago Kelly Street • 0

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Entering edit mode

I'm sorry, I'm not sure I understand how this is related to Slingshot. All the functions used here seem to be from either Seurat or dplyr.

According to the HVFInfo documentation, that function returns a data frame with means, dispersion, and scaled dispersion, but it makes no mention of residual variance.

ADD REPLY • link 4.0 years ago Kelly Street • 0

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