Quality control for target capture experiments


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Documentation for package ‘TEQC’ version 4.27.0

Help Pages

chrom.barplot Reads per chromosome barplot
coverage.correlation Coverage correlation plot
coverage.density Coverage density plot
coverage.GC Bait coverage versus GC content plot
coverage.hist Coverage histogram
coverage.plot Coverage versus base position plot
coverage.target Calculates read coverage
coverage.targetlength.plot Number of reads or average coverage versus target length scatter plot
coverage.uniformity Coverage uniformity plot
covered.k Target capture sensitivity
duplicates.barplot Read duplicates barplot
fraction.reads.target Target capture specificity
fraction.target Fraction of the target within the genome
get.baits Read capture hybridization probe positions
get.reads Read genomic positions of sequencing data
get.targets Read capture target positions
insert.size.hist Insert sizes histogram
make.wigfiles Creates wiggle files with per-base coverages
multiTEQCreport Creates an html report for multiple samples
reads2pairs Merges reads to read pairs
readsPerTarget Numbers of reads per target
TEQCreport Creates an html report