annotate_markers: Annotation for the cell markers.

In GrigoriiNos/rimmi.rnaseq: Set of functions for genomics data analysis

Annotation for the cell markers.

Description

This function allows you to get multiple functional annotations for DE genes for each cell cluster using a Seurat::FindAllMarkers function output

Usage

annotate_markers(
  markers_table,
  X = 50,
  method = "gprofiler",
  organism = "hsapiens",
  reg = "up"
)

Arguments

markers_table	The output of the Seurat::FndAllMarkers function, don't change anything in the column names within it.
X	How much of the genes you need to analyse in each cluster. 50 is a default.
organism	What species you work with? "mmusculus" and "hsapiens" is available in gProfiler. Human is a default.

Value

table with annotation for each cluster

Examples

annotate_markers(stromal_markers)

GrigoriiNos/rimmi.rnaseq documentation built on April 29, 2022, 5:18 p.m.