SeuratToCoNGA: SeuratToCoNGA

View source: R/CoNGA.R

SeuratToCoNGAR Documentation

SeuratToCoNGA

Description

A wrapper function to prepare a Seurat object for Conga.

Usage

SeuratToCoNGA(seuratObj, tcrClonesFile, seuratToCongaDir, assayName = "RNA")

Arguments

seuratObj

The Seurat object to be written into a 10x file format

tcrClonesFile

The 10x clonotypes file for this Seurat object. Single lanes can use the CellRanger/Vloupe contigs CSV file. Merged lanes need to merge these files and modify them to create unique cellbarcodes and clonotype names, such as the code from Rdiscvr::CreateMergedTcrClonotypeFile().

seuratToCongaDir

The local path to write the output files.

assayName

The name of the gene expression data assay.


bimberlabinternal/CellMembrane documentation built on Dec. 25, 2024, 8:10 a.m.