loadBAM {ASpli}R Documentation

Load BAM files

Description

Load BAM files into R session using a targets specification.

Usage

 loadBAM(targets, cores) 

Arguments

targets

A data frame containing sample, bam and experimental factors columns

cores

Number of processors to use

Value

A list of GAlignments. Each element of the list correspond to a samples BAM file.

Author(s)

Estefania Mancini, Marcelo Yanovsky, Ariel Chernomoretz

Examples


  # Define bam files, sample names and experimental factors for targets.
  bamFileNames <- c( "A_C_0.bam", "A_C_1.bam", "A_C_2.bam", 
                     "A_D_0.bam", "A_D_1.bam", "A_D_2.bam" )
  
  targets <- data.frame( 
               row.names = paste0('Sample_',c(1:6)),
               bam = system.file( 'extdata', bamFileNames, package="ASpli" ),
               factor1 = c( 'C','C','C','D','D','D') )
               
  # Load reads from bam files
  bams <- loadBAM( targets )
  

[Package ASpli version 1.10.0 Index]