LihuaJulieZhu/GUIDEseq: GUIDE-seq and PEtag-seq analysis pipeline
The package implements GUIDE-seq and PEtag-seq analysis workflow including functions for filtering UMI and reads with low coverage, obtaining unique insertion sites (proxy of cleavage sites), estimating the locations of the insertion sites, aka, peaks, merging estimated insertion sites from plus and minus strand, and performing off target search of the extended regions around insertion sites with mismatches and indels.
Getting started
Browse package contents
Package details |
|
|---|---|
| Author | Lihua Julie Zhu, Michael Lawrence, Ankit Gupta, Hervé Pagès , Alper Kucukural, Manuel Garber, Scot A. Wolfe |
| Bioconductor views | CRISPR GeneRegulation ImmunoOncology Sequencing WorkflowStep |
| Maintainer | Lihua Julie Zhu <julie.zhu@umassmed.edu> |
| License | GPL (>= 2) |
| Version | 1.33.2 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
|
