cloning my git repos

Setting up a new box and need to keep track of the stuff I work on.

R packages

in home directory
mkdir prog
cd prog

git clone https://github.com/protviz/quantable
git clone https://github.com/protviz/pepfdr
git clone https://github.com/wolski/imsbInfer
git clone https://github.com/wolski/topGoUniprot
git clone https://github.com/wolski/prozor

easiest way to install them in R is in RStudio - advantage : also saturates dependencies
library(devtools)

install_github("protviz/quantable")
install_github("protviz/pepfdr")
install_github("wolski/imsbInfer")
install_github("wolski/topGoUniprot")
install_github("wolski/prozor")

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("topGO")

Links to useful bioinformatics resources

http://humancyc.org/

CPDB
http://www.consensuspathdb.org/
Works for Human, Yeast and Mouse

http://www.wikipathways.org/index.php/WikiPathways

http://www.webgestalt.org/


String
http://string-db.org/
Protein interactions for many organisms

David
https://david.ncifcrf.gov/
Can help to annotate, classify your proteins



Some other super fancy links I need to have closer look at in the near future:
http://bost.ocks.org/mike/algorithms/