R package for BridgeDb, a tool for identifier mapping.
Read about BridgeDb in this paper:
Van Iersel, M.; Pico, A.; Kelder, T.; Gao, J.; Ho, I.; Hanspers, K.; Conklin, B.; Evelo, C. BMC Bioinformatics 2010, 11, 5
The source code of this package is available from:
https://github.com/BiGCAT-UM/bridgedb-r
License: AGPL-3
R CMD check BridgeDbR
R CMD build BridgeDbR
R CMD INSTALL BridgeDbR_x.y.z.tar.gz
To create the vignette:
rm -f .//inst/doc/tutorial.pdf; R CMD build bridgedbr; tar xvf bridgedbr_1.0.0.tar.gz bridgedbr/inst/doc/tutorial.pdf
To install the packages from within R with the devtools package:
> install.packages("rJava") # if not present already
> install.packages("RCurl") # if not present already
> install.packages("devtools") # if not present already
> library(devtools)
> install_github("bridgedb-r", "BiGCAT-UM", subdir="bridgedbrlibs")
> install_github("bridgedb-r", "BiGCAT-UM", subdir="bridgedbr")
This package requires RCurl and RJava, which can be installed with:
install.packages(pkgs=c("rJava", "RCurl"))