Files in ErasmusMC-CCBC/ProteoDisco
Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/AllClasses.R
R/AllGenerics.R
R/AllMethods.R
R/data.R
R/export_exportProteoDiscography.R
R/import_genomicVariants.R
R/import_manualSequences.R
R/import_spliceJunctions.R
R/method_checkReferenceAnchor.R
R/method_generateJunctionModels.R
R/method_generateProteoDiscography.R
R/method_incorporateGenomicMutations.R
README.md
data/ProteoDiscographyExample.hg19.rda
inst/CITATION
inst/doc/Overview_ProteoDisco.R
inst/doc/Overview_ProteoDisco.html
inst/extdata/spliceJunctions_pyQUILTS_chr22.bed
inst/extdata/validationSetSJ_hg19.txt
inst/extdata/validationSet_hg19.vcf
inst/extdata/validationSet_hg19_expectedResults.csv
man/ProteoDiscography.Rd
man/ProteoDiscographyExample.hg19.Rd
man/checkProteotypicFragments.Rd
man/dot-checkReferenceAnchor.Rd
man/exportProteoDiscography.Rd
man/generateJunctionModels.Rd
man/generateProteoDiscography.Rd
man/getDiscography.Rd
man/importGenomicVariants.MAF.Rd
man/importGenomicVariants.Rd
man/importGenomicVariants.VCF.Rd
man/importSpliceJunctions.Rd
man/importTranscriptSequences.Rd
man/incorporateGenomicVariants.Rd
man/mutantTranscripts.Rd
man/setGenomicSequences.Rd
man/setMutantTranscripts.Rd
man/setTxDb.Rd
tests/catchErrors.sh
tests/testthat.R
tests/testthat/test-ImportingManualTranscriptSequences.R
tests/testthat/test-determineProteotypicFragments.R
tests/testthat/test-importSJ.R
tests/testthat/test-minimalWorkflow.R
vignettes/.gitignore
vignettes/Overview_ProteoDisco.Rmd
