dot-analyzeUpstreamValidity: Plots the validity of upstream sequences

Description Usage Arguments Value

Description

Plots the distribution of valid, faulty, and missing start codon in IGV germlines (repeated for gene and family levels).

Usage

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.analyzeUpstreamValidity(upstreamDirectories, upstreamOut, expectedLength,
  upstreamLengthRange, sampleNames, combinedNames, mashedNames,
  .save = TRUE)

Arguments

upstreamDirectories

list type. List of sample directories

upstreamOut

string type. Output directory

expectedLength

int type. Expected length of upstream sequences. (i.e. upstream_end - upstream_start + 1). If this is infinite, no plots will be generated.

upstreamLengthRange

string type. start_end format

sampleNames

vector type. 1-1 with upstream directories

combinedNames

string type. Title friendly "combined" sample names

mashedNames

string type. File friendly "mashed-up" sample names

.save

logical type. Save Rdata?

Value

None


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