seqPattern: Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences

Visualising oligonucleotide patterns and sequence motifs occurrences across a large set of sequences centred at a common reference point and sorted by a user defined feature.

AuthorVanja Haberle <vanja.haberle@gmail.com>
Date of publicationNone
MaintainerVanja Haberle <vanja.haberle@gmail.com>
LicenseGPL-3
Version1.6.0

View on Bioconductor

Files in this package

seqPattern/DESCRIPTION
seqPattern/NAMESPACE
seqPattern/NEWS
seqPattern/R
seqPattern/R/MotifScanningFunctions.R seqPattern/R/MotifScanningMethods.R seqPattern/R/PatternOccurrenceFunctions.R seqPattern/R/PatternOccurrenceMethods.R seqPattern/R/PlottingFunctions.R seqPattern/R/PlottingMethods.R
seqPattern/build
seqPattern/build/vignette.rds
seqPattern/data
seqPattern/data/TBPpwm.RData
seqPattern/data/datalist
seqPattern/data/zebrafishPromoters.RData
seqPattern/data/zebrafishPromoters24h.RData
seqPattern/inst
seqPattern/inst/doc
seqPattern/inst/doc/seqPattern.R
seqPattern/inst/doc/seqPattern.Rnw
seqPattern/inst/doc/seqPattern.pdf
seqPattern/inst/unitTests
seqPattern/inst/unitTests/test_MotifScanningFunctions.R
seqPattern/inst/unitTests/test_MotifScanningMethods.R
seqPattern/inst/unitTests/test_PatternOccurrenceFunctions.R
seqPattern/inst/unitTests/test_PatternOccurrenceMethods.R
seqPattern/man
seqPattern/man/TBPpwm.Rd seqPattern/man/getPatternOccurrenceList.Rd seqPattern/man/motifScanHits.Rd seqPattern/man/motifScanScores.Rd seqPattern/man/plotMotifDensityMap.Rd seqPattern/man/plotMotifOccurrenceAverage.Rd seqPattern/man/plotMotifScanScores.Rd seqPattern/man/plotPatternDensityMap.Rd seqPattern/man/plotPatternOccurrenceAverage.Rd seqPattern/man/seqPattern-package.Rd seqPattern/man/zebrafisPromoters.Rd seqPattern/man/zebrafisPromoters24h.Rd
seqPattern/tests
seqPattern/tests/runTests.R
seqPattern/vignettes
seqPattern/vignettes/images
seqPattern/vignettes/images/ColorPalettes.pdf
seqPattern/vignettes/images/ConsensusDensity.jpg
seqPattern/vignettes/images/DensitySchematic.pdf
seqPattern/vignettes/images/MetaoligonucleotideDensity.jpg
seqPattern/vignettes/images/MotifAverage.pdf
seqPattern/vignettes/images/MotifDensity.jpg
seqPattern/vignettes/images/OligonucleotideAverage.pdf
seqPattern/vignettes/images/OligonucleotideDensity.jpg
seqPattern/vignettes/seqPattern.Rnw
seqPattern/vignettes/seqPattern.bib

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