rli012/Hapi: Inference of Chromosome-length Haplotypes using Genomic Data of Single Gamete Cells
Hapi (short for Haplotyping with imperfect genotype data) is a novel easy-to-use, R package for inference of chromosome-length haplotypes using a few haploid gametes of an individual. The gamete genotype data may be generated from various platforms including genotyping arrays and sequencing even with low-coverage. Hapi simply takes genotype data of known hetSNPs in single gamete cells as input and report the high-resolution haplotypes as well as confidence of each phased hetSNPs. The package also includes a module allowing downstream analyses and visualization of identified crossovers in the gametes.
Getting started
Browse package contents
Package details |
|
|---|---|
| Author | Ruidong Li, Han Qu, Jinfeng Chen, Shibo Wang, Le Zhang, Julong Wei, Sergio Pietro Ferrante, Mikeal L. Roose, Zhenyu Jia |
| Bioconductor views | Genetics GenomicVariation HiddenMarkovModel Microarray SNP Sequencing SingleCell |
| Maintainer | Ruidong Li <rli012@ucr.edu> |
| License | Artistic-2.0 |
| Version | 0.0.1 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
|
