# Fast and Accurate Trisomy Prediction in Non-Invasive Prenatal Testing

## Documentation for package ‘NIPTeR’ version 1.0.2

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

## Help Pages

add_samples_controlgroup | Add a sample to an existing control group
as_control_group | Convert list of nipt samples to nipt control group
bin_bam_sample | Load and bin BAM file
calculate_ncv_score | Use an NCV template to calculate a NCV score for sample of interest
calculate_z_score | Calculate 'standard' Z-score
chi_correct | Performs chi-square based variation reduction
chrfractions | Calculate chromosomal fraction
diagnose_control_group | Diagnose control group
gc_correct | Perform a GC bias correction on nipt sample
getcontrolchromosomes | Get control chromosomes names
getfractionscontrolgroup | Get all chromosomal fractions of a control group
getreadscontrolgroup | Get reads per chromosome per control group sample
match_control_group | Best matching control group by least sum of squares
nipt_sample | Load and bin BAM file
perform_regression | Regression based Z score
prepare_ncv | Prepare NCV calculation
remove_duplicates_controlgroup | Remove duplicate samples from control group
remove_sample_controlgroup | Remove a sample by samplename from control group
retrieve_fractions_of_interest | Retrieve the chromosomal fractions of a chromosome of interest