savR: Build a SAV project

In savR: Parse and analyze Illumina SAV files

Description

Constructor to build a savProject-class object and populate it. A SAV project consists of binary files generated by an Illumina sequencing run and placed in a folder named "InterOp". This folder contains a number of ".bin" files that contain statistics about the run. Creating this object parses all of the files and makes the data available for analysis.

Usage

savR(object)

## S4 method for signature 'character'
savR(object)

## S4 method for signature 'missing'
savR()

Arguments

object

String Path to Flowcell data

Examples

fc <- savR(system.file("extdata", "MiSeq", package="savR"))
fc

Example output

Loading required package: ggplot2
savProject instance with 1 lanes, 82 total cycles, and 2 sequence reads ( 1 sequencing and  1 indexed reads ).
 Default naming convention.
 With InterOp data for:  savCorrectedIntensityFormat (correctedIntensities)
  savQualityFormat (qualityMetrics)
  savTileFormat (tileMetrics)
  savExtractionFormat (extractionMetrics)
 

savR documentation built on Nov. 8, 2020, 7:03 p.m.