Man pages for ErasmusMC-CCBC/ProteoDisco
Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences
| checkProteotypicFragments | Determine proteotypic fragments within the translated CDS |
| dot-checkReferenceAnchor | Checks if mutations and reference genome correspond |
| exportProteoDiscography | Export the generated (mutant) peptides sequences to a FASTA... |
| generateJunctionModels | Generate putative transcript-models derived from... |
| generateProteoDiscography | Generate the annotation database (ProteoDiscography) |
| getDiscography | Retrieve imported genomic variants, splice-junctions and... |
| importGenomicVariants | Import genomic variants into the ProteoDiscography |
| importGenomicVariants.MAF | Import MAF files into a ProteoDiscography. |
| importGenomicVariants.VCF | Import VCF files into a ProteoDiscography. |
| importSpliceJunctions | Import splice-junctions into the ProteoDiscograpy. |
| importTranscriptSequences | Incorporate manual transcript sequences into the... |
| incorporateGenomicVariants | Incorporate genomic events into their overlapping exonic... |
| mutantTranscripts | Adds mutant transcript sequences to the ProteoDiscography in... |
| ProteoDiscography | ProteoDiscography |
| ProteoDiscographyExample.hg19 | Example ProteoDiscography. |
| setGenomicSequences | Change the underlying genomic sequences of a... |
| setMutantTranscripts | Adds mutant transcript sequences to the ProteoDiscography in... |
| setTxDb | Change the underlying TxDb of a ProteoDiscography object. |
