IndelIdents: IndelIdents

Description Usage Arguments Details Value Examples

View source: R/function.R

Description

Function to define a scarform for each cell(single cell) or each reads(bulk seq, generate 'cell barcode' for each reads)

Usage

1
IndelIdents(scarinfo, method.use = NULL, cln)

Arguments

scarinfo

List generate from IndelForm, for more see IndelForm

method.use

Select how to determine a scar form string for each cell: "reads.num" (default):find the scar with the most reads in the cell; "umi.num":find the scar with the most UMIs in the cell; "consensus":find the consistent sequences in each cell, and then generate scar form strings from the new reads

cln

The number of threads

Details

Title

Value

The list generate from FindIndel, but in 'Scar' element a new column contain scar form strings

Examples

1
2
data("example_data",package = "LinTInd")
IndelIdents(scarinfo,method.use="umi.num",cln=1)

mana-W/LinTInd documentation built on Feb. 14, 2022, 10:13 a.m.