GetAssemblyReport: GetAssemblyReport Function (SeQual) importFrom base...

In AlexisHardy/DNAModAnnot: Toolbox for DNA Modifications filtering and annotation

GetAssemblyReport Function (SeQual) importFrom base data.frame max sum return importFrom Biostrings alphabetFrequency letterFrequency

Description

Return a report with global characteristics of genome assembly.

Usage

GetAssemblyReport(dnastringsetGenome, cOrgAssemblyName)

Arguments

dnastringsetGenome	A DNAStringSet object containing the sequence for each contig.
cOrgAssemblyName	The name of the genome assembly provided.

Examples

myGenome <- Biostrings::readDNAStringSet(system.file(
  package = "DNAModAnnot", "extdata",
  "ptetraurelia_mac_51_sca171819.fa"
))

myReport <- GetAssemblyReport(
  dnastringsetGenome = myGenome,
  cOrgAssemblyName = "ptetraurelia_mac_51"
)

myReport

AlexisHardy/DNAModAnnot documentation built on Feb. 27, 2023, 12:03 a.m.