Merge pull request #3 from jguinney/master

Group G pipeline example
Merge pull request #4 from jguinney/master

Added provenance
add example of client integration and provenance
Merge pull request #5 from brian-bot/master

add example of client integration and provenance
Update subtypePipelineFuncs.R
Functions for running iNMF subtyping
iNMF subtype signatures (Affy HGU133plus2 probe set IDs and gene symbols)
added Entrez gene ID based signatures
Functions for running iNMF subtyping on one data set
Functions to handle data from Synapse
Support for signatures using Entrez gene IDs
Merge branch 'master' of https://github.com/andreas-schlicker/crcsc
Changes in how subtype labels are assigned to cluster ID
Create a co-clustering matrix
Functions for plotting subtyping results
Adds function for generating cooccurrence heatmap
Renames function cooccurrencePlot
iNMF signatures in text format
Merge branch 'master' of https://github.com/andreas-schlicker/crcsc
Extract the iNMF signatures from a data frame that contains all
signatures in different ID systems
Renames cooccurrence to coclustering