API for benilton/oligo
Preprocessing tools for oligonucleotide arrays
| Global functions | |
|---|---|
| .onAttach | Source code |
| .onUnload | Source code |
| AffyDate2Posix | Source code |
| GetAffyTimeDateAsString | Source code |
| HuberAllRowsByGroup | Source code |
| LLR2conf | Source code |
| NUSE | Source code |
| NgsDate2Posix | Source code |
| RLE | Source code |
| alleleSetFrom | Source code |
| availProbeInfo | Source code |
| backgroundCorrectionMethods | Source code |
| basecontent | Source code |
| basicAnnotatedDataFrame | Source code |
| basicMedianPolishBO | Source code |
| basicMvAplot | Source code |
| basicPData | Source code |
| basicPData2 | Source code |
| basicPLM | Source code |
| basicPhData1 | Source code |
| basicPhData2 | Source code |
| basicRMA | Source code |
| basicRMAbo | Source code |
| bgLESN | Source code |
| bgMAS | Source code |
| bgMASFS | Source code |
| bgShift | Source code |
| bgStretch | Source code |
| checkChipTypes | Source code |
| checkValidFilenames | Source code |
| cleanPlatformName | Source code |
| cloneFS | Source code |
| computeDABG | Source code |
| computePSDABG | Source code |
| constantNorm | Source code |
| crlmm | Source code |
| crlmm.old | Source code |
| crlmm2 | Source code |
| darkColors | Source code |
| divColors | Source code |
| f | Source code |
| ffSubset | Source code |
| fitAffySnpMixture | Source code |
| fitAffySnpMixture2 | Source code |
| fitAffySnpMixture56 | Source code |
| fitProbeLevelModel | Source code |
| g | Source code |
| gcCounts | Source code |
| genotypeByChromosome | Source code |
| genotypeOne | Source code |
| getAffinitySplineCoefficients | Source code |
| getAffySnpCalls | Source code |
| getAffySnpCalls56 | Source code |
| getAffySnpConfidence | Source code |
| getAffySnpConfidence56 | Source code |
| getAffySnpDistance | Source code |
| getAffySnpDistanceSingle | Source code |
| getAffySnpDistanceSingle56 | Source code |
| getAffySnpGenotypeRegionParams | Source code |
| getAffySnpPriors | Source code |
| getAllRowsSomeCols | Source code |
| getBaseProfile | Source code |
| getCelChipType | Source code |
| getChrXIndex | Source code |
| getCrlmmSummaries | Source code |
| getDefaultParsNormAdv | Source code |
| getFSetInfo | Source code |
| getFeatureInfo | Source code |
| getFidMetaProbesetCore | Source code |
| getFidMetaProbesetExtended | Source code |
| getFidMetaProbesetFull | Source code |
| getFidProbeset | Source code |
| getFilenames | Source code |
| getFragmentLength | Source code |
| getFromListAsVector | Source code |
| getGenotypeRegionParams | Source code |
| getInitialAffySnpCalls | Source code |
| getInitialAffySnpCalls2 | Source code |
| getMPSInfo | Source code |
| getNgsColorsInfo | Source code |
| getProbeIndex | Source code |
| getProbeInfo | Source code |
| getProbeTargets | Source code |
| getProbeTypes | Source code |
| getRefDABG | Source code |
| getSnpFragmentLength | Source code |
| getSnpLocInfo | Source code |
| getSnpNames | Source code |
| getSnpProbeInfo | Source code |
| getSomeRowsAllCols | Source code |
| getSomeRowsSomeCols | Source code |
| invariantsetNorm | Source code |
| justCRLMM | Source code |
| justCRLMM2 | Source code |
| justCRLMMv2 | Source code |
| justCRLMMv3 | Source code |
| justCRLMMv4 | Source code |
| justSNPRMA | Source code |
| list.xysfiles | Source code |
| liteNormalization | Source code |
| liteNormalization2 | Source code |
| loessNormV | Source code |
| matDensity | Source code |
| msgOK | Source code |
| my.abind | Source code |
| normalizationMethods | Source code |
| normalizeAdv | Source code |
| normalizeOne | Source code |
| oligoReadCels | Source code |
| oligoReadXys | Source code |
| outputEqualizer | Source code |
| paMAS5 | Source code |
| pair2xys | Source code |
| plm1Probeset | Source code |
| plotM | Source code |
| qnTargetStatsLDSnode | Source code |
| qnToTargetLDSnode | Source code |
| quantileNormalizationLDSmaster | Source code |
| read.celfiles | Source code |
| read.celfiles2 | Source code |
| read.mc.celfiles | Source code |
| read.xysfiles | Source code |
| read.xysfiles2 | Source code |
| readCEL | Source code |
| readChipTypesFromCels | Source code |
| readSummaries | Source code |
| readXysMatrix | Source code |
| readonexysfile | Source code |
| readxysHeader | Source code |
| replaceAffySnpParams | Source code |
| replaceAffySnpParamsSingle | Source code |
| rmaBgCorrectLDSmaster | Source code |
| rmaBgCorrectLDSnode | Source code |
| rowEntropy | Source code |
| rowIndepChiSqTest | Source code |
| runPLM | Source code |
| runSummarize | Source code |
| saveAppendMatrix | Source code |
| seqColors | Source code |
| seqColors2 | Source code |
| sequenceDesignMatrix | Source code |
| smartReadCEL | Source code |
| smartReadXYS | Source code |
| snpGenderCall | Source code |
| snprma | Source code |
| snprma2 | Source code |
| sqsFrom | Source code |
| sqsFrom.SnpCnv | Source code |
| stArrayPmInfo | Source code Source code |
| summarizationMethods | Source code |
| trigammaInverse | Source code |
| txtMsg | Source code |
| updateAffySnpParams | Source code |
| updateAffySnpParamsSingle | Source code |
