dot-plotSamples: Monolith AbSeq Plot function - the "driver" program

Description Usage Arguments Value

Description

Monolith AbSeq Plot function - the "driver" program

Usage

1
2
.plotSamples(sampleNames, directories, analysis, outputDir, primer5Files,
  primer3Files, upstreamRanges, skipDgene = FALSE)

Arguments

sampleNames

vector type. Vector of sample names in strings

directories

vector type. Vector of directories in strings, must be 1-1 with sampleNames

analysis

vector / list type. What analysis to plot for. If sampleNames or directories is > 1 (i.e. AbSeqCRep), then make sure that it's an intersection of all analysis conducted by the repertoires, otherwise, it wouldn't make sense

outputDir

string type. Where to dump the output

primer5Files

vector / list type. Collection of strings that the sample used for primer5 analysis. If sample N doesn't have a primer 5 file, leave it as anthing but a valid file path.

primer3Files

vector / list type. Collection of strings that the sample used for primer 3 analysis. If sample N doesn't have a primer 3 file, leave it as anthing but a valid file path.

upstreamRanges

list type. Collection of "None"s or vector denoting upstreamStart and upstreamEnd for each sample.

skipDgene

logical type. Whether or not to skip D gene distribution plot

Value

none


malhamdoosh/abseqR documentation built on May 24, 2019, 12:36 a.m.