# GUIDE-seq and PEtag-seq analysis pipeline

## Documentation for package ‘GUIDEseq’ version 1.26.0

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

## Help Pages

GUIDEseq-package | Analysis of GUIDE-seq
annotateOffTargets | Annotate offtargets with gene name
combineOfftargets | Combine Offtargets
createBarcodeFasta | Create barcode as fasta file format for building bowtie1 index
getPeaks | Obtain peaks from GUIDE-seq
getUniqueCleavageEvents | Using UMI sequence to obtain the starting sequence library
getUsedBarcodes | Create barcodes from the p5 and p7 index used for each sequencing lane
GUIDEseq | Analysis of GUIDE-seq
GUIDEseqAnalysis | Analysis pipeline for GUIDE-seq dataset
mergePlusMinusPeaks | Merge peaks from plus strand and minus strand
offTargetAnalysisOfPeakRegions | Offtarget Analysis of GUIDE-seq peaks
peaks.gr | example cleavage sites
PEtagAnalysis | Analysis pipeline for PEtag-seq dataset
uniqueCleavageEvents | example unique cleavage sites