Man pages for LihuaJulieZhu/GUIDEseq
GUIDE-seq and PEtag-seq analysis pipeline
| annotateOffTargets | Annotate offtargets with gene name |
| buildFeatureVectorForScoringBulge | Build Feature Vector For Scoring Offtargets with Bulge |
| combineOfftargets | Combine Offtargets |
| compareSamples | Compare Samples using Fisher's exact test |
| createBarcodeFasta | Create barcode as fasta file format for building bowtie1... |
| getBestAlnInfo | Parse pairwise alignment |
| 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... |
| GUIDEseqAnalysis | Analysis pipeline for GUIDE-seq dataset |
| GUIDEseq-package | Analysis of GUIDE-seq |
| mergePlusMinusPeaks | Merge peaks from plus strand and minus strand |
| offTargetAnalysisOfPeakRegions | Offtarget Analysis of GUIDE-seq peaks |
| offTargetAnalysisWithBulge | offTarget Analysis With Bulges Allowed Finding offtargets... |
| peaks.gr | example cleavage sites |
| PEtagAnalysis | Analysis pipeline for PEtag-seq dataset |
| plotAlignedOfftargets | Plot offtargets aligned to the target sequence |
| plotHeatmapOfftargets | Plot offtargets from multiple samples as heatmap |
| plotTracks | Plot offtargets as manhantann plots or along all chromosomes... |
| uniqueCleavageEvents | example unique cleavage sites |
