Man pages for Pasha
Preprocessing of Aligned Sequences from HTS Analyses
| AlignedData-class | Class 'AlignedData' |
| binVector | Divide a numeric vector in equal bins of signal |
| elongationEstimation | Shifting the positive strand vector and compute an overlap... |
| estimateElongationSize | Insert size estimation in-silico |
| generatePiled | Pileup reads in a numeric vector with several piling and... |
| getArtefactsIndexes | Identify reads implied in piles potentially considered as PCR... |
| mergeWigs | Merge several different wig files in a unique result file |
| multiread_CSEMDispatch | Multiread scoring CSEM dispatch |
| multiread_RemoveArtifact | Artifact Remover |
| multiread_UniformDispatch | Multiread scoring uniform dispatch |
| normAndSubtract | Normalization and subtraction of WIG files |
| PASHA-package | Pasha package (Preprocessing of Aligned Sequences from HTS... |
| pileupDouble | Piling vector of double |
| plotReadsRepartitionAnnotations | Graphical information about reads and annotations repartition |
| processPipeline | A pipeline to accurately transform aligned reads to genomic... |
| testFunctional | Functions dedicated to the functional validation of Pasha... |
| testMultireadFunctional | Functions dedicated to the functional validation of multiread... |
| wigIO | Read and Write genomic WIG (fixed step) files |
| WigRepeatAnalyzer | WIG Repeat Analyzer |
