An package for identification of novel peptides by customized database derived from RNA-Seq

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Documentation for package ‘PGA’ version 1.18.0

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addGeneName4Ensembl Add gene nemes
buildFusionProteinDB Create customized protein database from fusion events
createProDB4DenovoRNASeq Create protein database based on the transcripts from de novo reconstruction of transcriptome from RNA-seq data
dbCreator Create customized protein database from RNA-Seq data
easyRun easyRun
parserGear Post-processing for the identification result
PrepareAnnotationEnsembl2 Prepare annotation from ENSEMBL
PrepareAnnotationRefseq2 Prepare annotation from Refseq
reportGear The main function for report generation
runTandem run X!Tandem