Files in Bioconductor-mirror/DECIPHER
Tools for curating, analyzing, and manipulating biological sequences

DESCRIPTION
NAMESPACE
R/Add2DB.R R/AdjustAlignment.R R/AlignDB.R R/AlignProfiles.R R/AlignSeqs.R R/AlignSynteny.R R/AlignTranslation.R R/AmplifyDNA.R R/Array2Matrix.R R/BrowseDB.R R/BrowseSeqs.R R/CalculateEfficiencyArray.R R/CalculateEfficiencyFISH.R R/CalculateEfficiencyPCR.R R/Codec.R R/ConsensusSequence.R R/CorrectFrameshifts.R R/CreateChimeras.R R/DB2Seqs.R R/DesignArray.R R/DesignPrimers.R R/DesignProbes.R R/DesignSignatures.R R/DigestDNA.R R/Disambiguate.R R/DistanceMatrix.R R/FindChimeras.R R/FindSynteny.R R/FormGroups.R R/IdClusters.R R/IdConsensus.R R/IdLengths.R R/IdentifyByRank.R R/MaskAlignment.R R/MeltDNA.R R/NNLS.R R/OrientNucleotides.R R/PredictDBN.R R/PredictHEC.R R/ReadDendrogram.R R/SearchDB.R R/Seqs2DB.R R/StaggerAlignment.R R/Synteny-class.R R/TerminalChar.R R/TileSeqs.R R/TrimDNA.R R/WriteDendrogram.R R/utils.R R/zzz.R
data/HEC_MI1.RData
data/HEC_MI2.RData
data/MIQS.RData
data/RESTRICTION_ENZYMES.RData
data/deltaGrules.RData
data/deltaHrules.RData
data/deltaSrules.RData
inst/CITATION
inst/extdata/50S_ribosomal_protein_L2.fas
inst/extdata/Bacteria_175seqs.fas
inst/extdata/Bacteria_175seqs.gen
inst/extdata/Bacteria_175seqs.sqlite
inst/extdata/IDH2.fas
inst/extdata/Influenza.sqlite
inst/extdata/Streptomyces_ITS_aligned.fas
man/Add2DB.Rd man/AdjustAlignment.Rd man/AlignDB.Rd man/AlignProfiles.Rd man/AlignSeqs.Rd man/AlignSynteny.Rd man/AlignTranslation.Rd man/AmplifyDNA.Rd man/Array2Matrix.Rd man/BrowseDB.Rd man/BrowseSeqs.Rd man/CalculateEfficiencyArray.Rd man/CalculateEfficiencyFISH.Rd man/CalculateEfficiencyPCR.Rd man/Codec.Rd man/ConsensusSequence.Rd man/CorrectFrameshifts.Rd man/CreateChimeras.Rd man/DB2Seqs.Rd man/DECIPHER-package.Rd man/DesignArray.Rd man/DesignPrimers.Rd man/DesignProbes.Rd man/DesignSignatures.Rd man/DigestDNA.Rd man/Disambiguate.Rd man/DistanceMatrix.Rd man/FindChimeras.Rd man/FindSynteny.Rd man/FormGroups.Rd man/HEC_MI.Rd man/IdClusters.Rd man/IdConsensus.Rd man/IdLengths.Rd man/IdentifyByRank.Rd man/MIQS.Rd man/MODELS.Rd man/MaskAlignment.Rd man/MeltDNA.Rd man/NNLS.Rd man/OrientNucleotides.Rd man/PredictDBN.Rd man/PredictHEC.Rd man/RESTRICTION_ENZYMES.Rd man/ReadDendrogram.Rd man/SearchDB.Rd man/Seqs2DB.Rd man/StaggerAlignment.Rd man/Synteny-class.Rd man/TerminalChar.Rd man/TileSeqs.Rd man/TrimDNA.Rd man/WriteDendrogram.Rd man/deltaGrules.Rd man/deltaHrules.Rd man/deltaSrules.Rd
src/AlignProfiles.c
src/AssignIndels.c
src/Biostrings_stubs.c
src/CalculateDeltaG.c
src/CalculateFISH.c
src/ChainSegments.c
src/ClusterML.c
src/ClusterNJ.c
src/ClusterUPGMA.c
src/CommonGaps.c
src/Compositions.c
src/Compression.c
src/ConsensusSequence.c
src/ConsolidateGaps.c
src/DECIPHER.h
src/DesignProbes.c
src/Diff.c
src/DistanceMatrix.c
src/EnumerateSequence.c
src/ExpandAmbiguities.c
src/FindFrameshifts.c
src/GetPools.c
src/Import.c
src/InformationContent.c
src/InsertGaps.c
src/IntDist.c
src/Makevars
src/MeltPolymer.c
src/MovingAverage.c
src/MultiMatch.c
src/NNLS.c
src/Order.c
src/PredictDBN.c
src/PredictHEC.c
src/R_init_decipher.c
src/RemoveGaps.c
src/ReplaceChars.c
src/TerminalMismatch.c
src/Translate.c
src/XVector_stubs.c
vignettes/AlignmentBenchmarks.pdf vignettes/AlignmentFlowChart.pdf
vignettes/AlignmentSpace1.png
vignettes/AlignmentSpace2.png
vignettes/AmpliconSignatures.pdf
vignettes/ArtOfAlignmentInR.Rnw
vignettes/BrowseAmpliconOutput.png
vignettes/BrowseDBOutput.png
vignettes/BrowseProbesOutput.png
vignettes/BrowseSeqsOutput.png
vignettes/BrowseSignaturesOutput.png
vignettes/DECIPHERing.Rnw
vignettes/DefaultVsChainedGuideTrees.pdf vignettes/DenaturationPlot.pdf
vignettes/DesignMicroarray.Rnw
vignettes/DesignPrimers.Rnw
vignettes/DesignProbes.Rnw
vignettes/DesignSignatures.Rnw
vignettes/DigestedSignatures.pdf
vignettes/DualProbesScores.png
vignettes/FindChimeras.Rnw
vignettes/FormamideCurve.png
Bioconductor-mirror/DECIPHER documentation built on May 29, 2017, 3:09 a.m.