parseMiXCR: parse MiXCR tables

In ph-pham/RepSeq: Analysis of High-throughput sequencing repertoire data (RepSeqTools)

Description

function imports clonotype tables produced by MiXCR aligner.

Usage

parseMiXCR(path, chain = c("A", "B"))

Arguments

path	full path to a file returned by MiXCR
chain	TCR chain A or [codeB to extract. Default value is A.

Value

a data.table

Examples

## Not run: 
# The package RepSeqData contains example datasets 
l <- list.files(system.file(file.path('extdata/mixcr'), 
             package = 'RepSeqData'), 
             full.names = TRUE)
l # there are 6 gz-compressed files
path <- l[1] # the first gz-compressed of the previous list
dataset <- parseMiXCR(path, chain = "B")
dataset

## End(Not run)

ph-pham/RepSeq documentation built on Dec. 22, 2021, 7:47 a.m.