Files in customProDB
Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics search

NEWS
DESCRIPTION
NAMESPACE
inst/CITATION
inst/doc/customProDB.R
inst/doc/customProDB.Rnw
inst/doc/customProDB.pdf
inst/extdata/refseq_coding_seq.fasta
inst/extdata/refseq_pro_seq.fasta
inst/extdata/test_mul.vcf
inst/extdata/bams/test1_sort.bam
inst/extdata/bams/test2_sort.bam
inst/extdata/bams/test2_sort.bam.bai
inst/extdata/bams/test3_sort.bam
inst/extdata/bams/test1_sort.bam.bai
inst/extdata/bams/test3_sort.bam.bai
inst/extdata/beds/junctions2.bed
inst/extdata/beds/junctions1.bed
inst/extdata/beds/junctions3.bed
inst/extdata/refseq/splicemax.RData
inst/extdata/refseq/txdb.sqlite
inst/extdata/refseq/exon_anno.RData
inst/extdata/refseq/cosmic.RData
inst/extdata/refseq/ids.RData
inst/extdata/refseq/procodingseq.RData
inst/extdata/refseq/proseq.RData
inst/extdata/refseq/dbsnpinCoding.RData
inst/extdata/vcfs/test1.vcf
inst/extdata/vcfs/test3.vcf
inst/extdata/vcfs/test2.vcf
inst/extdata/tmp/test_snv.tab
inst/extdata/tmp/test_rpkm.fasta
inst/extdata/tmp/test_indel.fasta
inst/extdata/tmp/test_junc.fasta
inst/extdata/tmp/test_snv.fasta
vignettes/customProDB.Rnw
R/PrepareAnnotationRefseq.R R/Ensembl.utils.R R/SharedJunc.R R/InputVcf.R R/OutputVarprocodingseq.R R/Varlocation.R R/makeTranscriptDbFromBiomart_archive.R R/Outputproseq.R R/utils.R R/Bed2Range.R R/Outputaberrant.R R/Multiple_VCF.R R/easyRun.R R/aaVariation.R R/PrepareAnnotationEnsembl.R R/easyRun_mul.R R/OutputsharedPro.R R/Positionincoding.R R/OutputVarproseq_single.R R/calculateRPKM.R R/OutputVarproseq.R R/JunctionType.R R/OutputNovelJun.R man/JunctionType.Rd man/Bed2Range.Rd man/PrepareAnnotationRefseq.Rd man/PrepareAnnotationEnsembl.Rd man/SharedJunc.Rd man/OutputsharedPro.Rd man/Varlocation.Rd man/OutputVarproseq.Rd man/easyRun_mul.Rd man/calculateRPKM.Rd man/Outputproseq.Rd man/Outputaberrant.Rd man/Multiple_VCF.Rd man/Positionincoding.Rd man/OutputNovelJun.Rd man/OutputVarprocodingseq.Rd man/aaVariation.Rd man/OutputVarproseq_single.Rd man/InputVcf.Rd man/easyRun.Rd
build/vignette.rds
customProDB documentation built on Nov. 1, 2018, 4 a.m.