pfClusters: Get number of PF clusters per lane

In savR: Parse and analyze Illumina SAV files

Description

Sum the total pass filter number of clusters for all tiles in the lane.

Usage

pfClusters(project, lane)

## S4 method for signature 'savProject,integer'
pfClusters(project, lane = 1L)

Arguments

project	SAV project
lane	lane(s) number

Examples

## Not run: 
example(savR)
pfClusters(fc, 1L)

## End(Not run)

Example output

Loading required package: ggplot2

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

savR> fc
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)
 
[1] 11272919

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