# Phase Variants Within Genes Using Allele Counts

## Documentation for package ‘scphaser’ version 1.0.0

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

## Help Pages

call_gt | Call transcribed genotypes
filter_acset | Filter variants and features
filter_feat_nminvar | Filter features on minimal number of required variants
filter_homovars | Filter homozygous variants
filter_var_gt | Filter variants
filter_zerorow | Filter variants with zero allele counts in all cells
marinov | Single-cell RNA-seq allele counts for the Marinov et al dataset
mousehybrid | Single-cell RNA-seq allele counts for a mouse-hybrid dataset
new_acset | Construct an allele count set
phase | Phasing of alleles
plot_conc | Phasing concordance plot
racset | Randomize an acset
set_gt_conc | Cell-distribution variability upon phasing
subset_cols | Subset cells
subset_feat | Subset features
subset_rows | Subset variants