scPathogenGO: scPathogenGO annotation

Description Usage Arguments Value Author(s)

View source: R/scPathogenGO.R

Description

GO annotation for scPathogenDGE results

Usage

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scPathogenGO(
  object = NULL,
  key = NULL,
  species = NULL,
  clusters = NULL,
  logFC = 0.25,
  only.pos = TRUE,
  reference = "human"
)

Arguments

object

Seurat object

key

The DGEs are stored in object@misc$key

species

Species which is used to divid cells into two groups

clusters

A vector of clusters, default all clusters will be used

logFC

A positive value to set the cutoff of logFC

only.pos

Only up-regulated genes are taken into account, default only.pos=TRUE

reference

Reference organism to set ['human' or 'mouse'], default reference = 'human'

Value

Table that stores scPathogenGO results

Author(s)

Wei Zhang


rstatistics/SCKIT documentation built on Dec. 22, 2021, 7:18 p.m.