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 (3.0)

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 Proteomics, Software
Version 1.6.0
In Bioconductor since BioC 2.13 (R-3.0)
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(>= 1.7.28), rtracklayer, RSQLite, AnnotationDbi
Suggests BSgenome.Hsapiens.UCSC.hg19
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source customProDB_1.6.0.tar.gz
Windows Binary customProDB_1.6.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) customProDB_1.6.0.tgz
Mac OS X 10.9 (Mavericks) customProDB_1.6.0.tgz
Browse/checkout source (username/password: readonly)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center