Man pages for STRMPS
Analysis of Short Tandem Repeat (STR) Massively Parallel Sequencing (MPS) Data

BLMMBlock length of the missing motif.
extractedReadsList-classExtract STR region information
extractedReadsListCombined-classCombined extract STR region information.
extractedReadsListNonCombined-classCombined extract STR region information.
extractedReadsListReverseComplement-classExtract STR region information of the reverse complement DNA...
findNeighboursFind neighbours
findNeighbours-stringCoverageGenotypeList-methodFind neighbours
findStutterFind stutters
findStutter-stringCoverageGenotypeList-methodFind stutters
flankingRegionsFlanking regions
genotypeIdentifiedList-classGenotype list
genotypeListGenotype list
getGenotypeAssigns genotype.
getGenotype-stringCoverageList-methodAssigns genotype.
identifiedSTRsIdentified STR regions
identifyNoiseIdenfities the noise.
identifyNoise-stringCoverageList-methodIdenfities the noise.
identifySTRRegionsIdentify the STR regions of a fastq-file or...
identifySTRRegions-character-methodIdentify the STR regions of a fastq-file or...
identifySTRRegions.controlControl function for identifySTRRegions
identifySTRRegions-ShortReadQ-methodIdentify the STR regions of a fastq-file or...
mergeGenotypeStringCoverageMerge genotypeIdentifiedList and stringCoverageList.
mergeGenotypeStringCoverage-genotypeIdentifiedList-methodMerge genotypeIdentifiedList and stringCoverageList.
mergeNoiseStringCoverageMerge noiseIdentifiedList and stringCoverageList.
mergeNoiseStringCoverage-noiseIdentifiedList-methodMerge noiseIdentifiedList and stringCoverageList.
neighbourList-classA neighbour list
noiseIdentifiedList-classNoise list
noiseListNoise list
probabilityOfErrorQuality score to probability
qualityScoreConvert probability to quality score
stringCoverageGet string coverage STR identified objects.
stringCoverage.controlString coverage coontrol object
stringCoverage-extractedReadsListCombined-methodGet string coverage STR identified objects.
stringCoverage-extractedReadsList-methodGet string coverage STR identified objects.
stringCoverage-extractedReadsListNonCombined-methodGet string coverage STR identified objects.
stringCoverage-extractedReadsListReverseComplement-methodGet string coverage STR identified objects.
stringCoverageGenotypeListCombined string coverage and genotype information
stringCoverageGenotypeList-classCombined stringCoverage- and genotypeIdentifiedList
stringCoverageListAggregated string coverage.
stringCoverageList-classA string coverage list
stringCoverageNoiseList-classCombined stringCoverage- and noiseIdentifiedList
STRMPSWorkflowWorkflow function
STRMPSWorkflowBatchBatch wrapper for the workflow function
STRMPSWorkflowCollectStuttersCollect stutters files
workflow.controlWorkflow default options
STRMPS documentation built on July 2, 2018, 9:02 a.m.