# Quality control for target capture experiments

## Documentation for package ‘TEQC’ version 3.14.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## 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