To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("customProDB")

In most cases, you don't need to download the package archive at all.

customProDB

 

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

Bioconductor version: Release (3.1)

Generate customized protein sequence database from RNA-Seq data for proteomics search

Author: xiaojing wang

Maintainer: xiaojing wang <xiaojing.wang at vanderbilt.edu>

Citation (from within R, enter citation("customProDB")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("customProDB")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("customProDB")

 

PDF R Script Introduction to customProDB
PDF   Reference Manual
Text   NEWS

Details

biocViews AlternativeSplicing, MassSpectrometry, Proteomics, RNASeq, SNP, Software, Transcription
Version 1.8.2
In Bioconductor since BioC 2.13 (R-3.0) (2 years)
License Artistic-2.0
Depends R (>= 3.0.1), IRanges, AnnotationDbi, biomaRt
Imports IRanges, GenomicRanges, Rsamtools(>= 1.10.2), GenomicAlignments, Biostrings(>= 2.26.3), GenomicFeatures(>= 1.17.13), biomaRt(>= 2.17.1), stringr, RCurl, plyr, VariantAnnotation(>= 1.13.44), rtracklayer, RSQLite, AnnotationDbi
LinkingTo
Suggests BSgenome.Hsapiens.UCSC.hg19
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source customProDB_1.8.2.tar.gz
Windows Binary customProDB_1.8.2.zip
Mac OS X 10.6 (Snow Leopard) customProDB_1.8.2.tgz
Mac OS X 10.9 (Mavericks) customProDB_1.8.2.tgz
Subversion source (username/password: readonly)
GitHub source https://github.com/Bioconductor-mirror/customProDB/tree/release-3.1
Package Short Url http://bioconductor.org/packages/customProDB/
Package Downloads Report Download Stats

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