altcdfenvs: alternative CDF environments (aka probeset mappings)

Convenience data structures and functions to handle cdfenvs

AuthorLaurent Gautier <lgautier@gmail.com>
Date of publicationNone
MaintainerLaurent Gautier <lgautier@gmail.com>
LicenseGPL (>= 2)
Version2.36.0

View on Bioconductor

Functions

AffyProbesMatch-class Man page
appendCdfEnvAffy Man page
buildCdfEnv.biostrings Man page
buildCdfEnv.matchprobes Man page
CdfEnv Man page
[,CdfEnvAffy,character,missing,missing-method Man page
CdfEnvAffy-class Man page
cdfenvEx Man page
coerce,CdfEnvAffy,Cdf-method Man page
coerce,CdfEnvAffy,environment-method Man page
combine,AffyProbesMatch,AffyProbesMatch-method Man page
copyCdfEnvAffy Man page
countduplicated Man page
countskip.FASTA.entries Man page
geneNames.AltAffyBatch Man page
geneNames.CdfEnvAffy Man page
geneNames,CdfEnvAffy-method Man page
getCdfEnvAffy Man page
getxy.probeseq Man page
grep.FASTA.entry Man page
index2xy Man page
index2xy.AltAffyBatch Man page
index2xy.CdfEnvAffy Man page
index2xy,CdfEnvAffy-method Man page
indexProbes.AltAffyBatch Man page
indexProbes.CdfEnvAffy Man page
indexProbes,CdfEnvAffy,character-method Man page
matchAffyProbes Man page
mmProbes Man page
plot.CdfEnvAffy Man page
plot,CdfEnvAffy,missing-method Man page
print.FASTA Man page
printValidCdfEnvAffy Man page
read.FASTA.entry Man page
read.FASTA.entry Man page
read.n.FASTA.entries Man page
read.n.FASTA.entries.split Man page
read.n.FASTA.headers Man page
read.n.FASTA.sequences Man page
removeIndex Man page
show,AffyProbesMatch-method Man page
show,CdfEnvAffy-method Man page
skip.FASTA.entry Man page
toHypergraph Man page
toHypergraph,AffyProbesMatch-method Man page
toHypergraph,CdfEnvAffy-method Man page
unique.CdfEnvAffy Man page
validAffyBatch Man page
validCdfEnvAffy Man page
wrapCdfEnvAffy Man page
write.FASTA Man page
xy2index Man page
xy2index.AltAffyBatch Man page
xy2index.CdfEnvAffy Man page
xy2index,CdfEnvAffy-method Man page

Files

altcdfenvs/DESCRIPTION
altcdfenvs/NAMESPACE
altcdfenvs/R
altcdfenvs/R/CdfEnv.R altcdfenvs/R/appendCdfEnvAffy.R altcdfenvs/R/buildCdfEnv.biostrings.R altcdfenvs/R/buildCdfEnv.matchprobes.R altcdfenvs/R/cdfenvs.R altcdfenvs/R/copyCdfEnvAffy.R altcdfenvs/R/readFASTA.R altcdfenvs/R/removeIndex.R altcdfenvs/R/unique.CdfEnvAffy.R
altcdfenvs/build
altcdfenvs/build/vignette.rds
altcdfenvs/data
altcdfenvs/data/cdfenvEx.rda
altcdfenvs/inst
altcdfenvs/inst/CITATION
altcdfenvs/inst/UnitTests
altcdfenvs/inst/UnitTests/AffyProbesMatch_test.R
altcdfenvs/inst/doc
altcdfenvs/inst/doc/altcdfenvs.R
altcdfenvs/inst/doc/altcdfenvs.Rnw
altcdfenvs/inst/doc/altcdfenvs.pdf
altcdfenvs/inst/doc/modify.R
altcdfenvs/inst/doc/modify.Rnw
altcdfenvs/inst/doc/modify.pdf
altcdfenvs/inst/doc/ngenomeschips.R
altcdfenvs/inst/doc/ngenomeschips.Rnw
altcdfenvs/inst/doc/ngenomeschips.pdf
altcdfenvs/inst/exampleData
altcdfenvs/inst/exampleData/Plasmodium-Probeset-IDs.txt
altcdfenvs/inst/exampleData/sample.fasta
altcdfenvs/inst/exampleData/slamf_targets.RData
altcdfenvs/inst/internalData
altcdfenvs/inst/internalData/chipspecs.tab
altcdfenvs/man
altcdfenvs/man/AffyProbesMatch-class.Rd altcdfenvs/man/CdfEnvAffy-class.Rd altcdfenvs/man/appendCdfEnvAffy.Rd altcdfenvs/man/buildCdfEnv.biostrings.Rd altcdfenvs/man/cdfenv.Rd altcdfenvs/man/cdfenvEx.Rd altcdfenvs/man/copyCdfEnvAffy.Rd altcdfenvs/man/countduplicated.Rd altcdfenvs/man/geneNames.Rd altcdfenvs/man/getxy.probeseq.Rd altcdfenvs/man/index2xy.Rd altcdfenvs/man/indexProbes.CdfEnvAffy.Rd altcdfenvs/man/matchAffyProbes.Rd altcdfenvs/man/plot.CdfEnvAffy.Rd altcdfenvs/man/removeIndex.Rd altcdfenvs/man/toHypergraph.Rd altcdfenvs/man/unique.CdfEnvAffy.Rd altcdfenvs/man/utils.FASTA.Rd altcdfenvs/man/validAffyBatch.Rd
altcdfenvs/vignettes
altcdfenvs/vignettes/altcdfenvs.Rnw
altcdfenvs/vignettes/modify.Rnw
altcdfenvs/vignettes/ngenomeschips.Rnw

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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