API for seqTools
Analysis of nucleotide, sequence and quality content on fastq files
| Global functions | |
|---|---|
| .onUnload | Source code Source code |
| Fastqq-class | Man page |
| [,Fastqq-method | Man page |
| [-methods | Man page |
| ascii2char | Man page Source code |
| cbDistMatrix | Man page |
| cbDistMatrix,Fastqq-method | Man page |
| cbDistMatrix-methods | Man page |
| char2ascii | Man page Source code |
| collectDur | Man page |
| collectDur,Fastqq-method | Man page |
| collectDur-methods | Man page |
| collectTime | Man page |
| collectTime,Fastqq-method | Man page |
| collectTime-methods | Man page |
| countDnaKmers | Man page Source code |
| countFastaKmers | Man page Source code |
| countGenomeKmers | Man page Source code |
| countSpliceKmers | Man page Source code |
| enlargeIntMat | Source code |
| fastqKmerLocs | Man page Source code |
| fastqKmerSubsetLocs | Man page Source code |
| fastqq | Man page Source code |
| fileNames | Man page |
| fileNames,Fastqq-method | Man page |
| fileNames-methods | Man page |
| gcContent | Man page |
| gcContent,Fastqq-method | Man page |
| gcContent-methods | Man page |
| gcContentMatrix | Man page |
| gcContentMatrix,Fastqq-method | Man page |
| gcContentMatrix-methods | Man page |
| getGCcontent | Man page |
| getGCcontent,Fastqq-method | Man page |
| getGCcontent-methods | Man page |
| getK | Man page |
| getK,Fastqq-method | Man page |
| getK-methods | Man page |
| kMerIndex | Man page Source code |
| kmerCount | Man page |
| kmerCount,Fastqq-method | Man page |
| kmerCount-methods | Man page |
| listMelt | Source code |
| maxSeqLen | Man page |
| maxSeqLen,Fastqq-method | Man page |
| maxSeqLen-methods | Man page |
| meltDownK | Man page |
| meltDownK,Fastqq-method | Man page |
| meltDownK-methods | Man page |
| mergeFastqq | Man page |
| mergeFastqq,Fastqq-method | Man page |
| mergeFastqq-methods | Man page |
| mergedPhred | Man page |
| mergedPhred,Fastqq-method | Man page |
| mergedPhred-methods | Man page |
| mergedPhredQuantiles | Man page |
| mergedPhredQuantiles,Fastqq-method | Man page |
| mergedPhredQuantiles-methods | Man page |
| nFiles | Man page |
| nFiles,Fastqq-method | Man page |
| nFiles-methods | Man page |
| nNnucs | Man page |
| nNnucs,Fastqq-method | Man page |
| nNnucs-methods | Man page |
| nReads | Man page |
| nReads,Fastqq-method | Man page |
| nReads-methods | Man page |
| nucFreq | Man page |
| nucFreq,Fastqq-method | Man page |
| nucFreq-methods | Man page |
| pd_l10 | Source code |
| phred | Man page |
| phred,Fastqq-method | Man page |
| phred-methods | Man page |
| phredDist | Man page |
| phredDist,Fastqq-method | Man page |
| phredDist-methods | Man page |
| phredQuantiles | Man page |
| phredQuantiles,Fastqq-method | Man page |
| phredQuantiles-methods | Man page |
| phredTable | Man page Source code |
| plotGCcontent | Man page |
| plotGCcontent,Fastqq-method | Man page |
| plotGCcontent-methods | Man page |
| plotKmerCount | Man page |
| plotKmerCount,Fastqq-method | Man page |
| plotKmerCount-methods | Man page |
| plotMergedPhredQuant | Man page |
| plotMergedPhredQuant,Fastqq-method | Man page |
| plotMergedPhredQuant-methods | Man page |
| plotNucCount | Man page |
| plotNucCount,Fastqq-method | Man page |
| plotNucCount-methods | Man page |
| plotNucFreq | Man page |
| plotNucFreq,Fastqq-method | Man page |
| plotNucFreq-methods | Man page |
| plotPhredDist | Man page |
| plotPhredDist,Fastqq-method | Man page |
| plotPhredDist-methods | Man page |
| plotPhredQuant | Man page |
| plotPhredQuant,Fastqq-method | Man page |
| plotPhredQuant-methods | Man page |
| probeLabel | Man page |
| probeLabel,Fastqq-method | Man page |
| probeLabel-methods | Man page |
| probeLabel<- | Man page |
| probeLabel<-,Fastqq-method | Man page |
| probeLabel<--methods | Man page |
| propPhred | Man page |
| propPhred,Fastqq-method | Man page |
| propPhred-methods | Man page |
| rel_int | Source code |
| rel_real | Source code |
| revCountDnaKmers | Man page Source code |
| seqLen | Man page |
| seqLen,Fastqq-method | Man page |
| seqLen-methods | Man page |
| seqLenCount | Man page |
| seqLenCount,Fastqq-method | Man page |
| seqLenCount-methods | Man page |
| seqTools | Man page |
| seqTools-package | Man page |
| simFastqqRunTimes | Man page Source code |
| sim_fq | Man page Source code |
| trimFastq | Man page Source code |
| writeFai | Man page Source code |
| writeSimContFastq | Man page Source code |
| writeSimFastq | Man page Source code |
