scraps_to_seurat: Add scraps output to existing seurat object as new assay

In rnabioco/scrapR: scraps output import and processing in R

Add scraps output to existing seurat object as new assay

Description

Add scraps output to existing seurat object as new assay

Usage

scraps_to_seurat(
  file,
  object,
  assay_name = "Asite",
  n_min = 5,
  alt_only = TRUE,
  types = "3'UTR",
  pf = NULL
)

Arguments

file	scraps output table containing
object	seurat object
n_min	minimum number of observations for a site to be kept
alt_only	if TRUE, only keep genes with alternative polyA sites
types	filter to only these types of PA sites, set to NULL to use all
pf	data.frame with SAF first column and position factor by gene, calculated by parse_saf_pf

Value

Seurat object with inserted assay

rnabioco/scrapR documentation built on Aug. 14, 2022, 9:38 a.m.