pennatula

ComplexViz

Plugin for PathVisio for integrative visualization of complex component data on the complex nodes.

Layouts

A PathVisio plugin which implements several layout algorithms. Currently implemented layouts include, SBML Layout (http://sbmllayout.sourceforge.net/SBMLLayout/Welcome.html) and Force directed Layout (http://opentutorials.cgl.ucsf.edu/index.php/Tutorial:Introduction_to_Cytoscape#Force-Directed_Layout)

awesome-machine-learning

A curated list of awesome Machine Learning frameworks, libraries and software.

bridgedb-r

R package for BridgeDB.

CNTK

Microsoft Cognition Toolkit (CNTK)

CuratorTool

data-factory-r-server-apache-spark-pipeline

This tutorial highlights how to build a scalable machine-learning based data processing pipeline using Microsoft R Server with Apache Spark utilizing Azure Data Factory (ADF)

datasciencecoursera

This repo contains the files related to the Coursera Data Science Specialization

FYI

Find your interactions in PathVisio.

Medcoin-Crypto-Currency-Project

A Git Hub repo showing the progress of the Medcoin™ Crypto Currency from inception to date

nob-hq

Administrative repository for the Network of BioThings

opencpu

OpenCPU system for embedded scientific computation and reproducible research

PathVisioWithInteractionSupport

This version of the PathVisio (http://www.pathvisio.org/) application works with the new interaction annotation database. The annotation database can be created using the code from https://github.com/pennatula/InteractionDB.git.

pennatula.github.com

My personal website.

PlantUploader

Uploader for plant pathways

reactome2gpml-converter

Converts Reactome pathways to GPML format

reactomeComplexResolution

A quick fix to resolve Reactome complexes for the conversion to GPML

RPathVisio

R package for PathVisioRPC

RWikiPathways

R package to connect to the WikiPathways web service and the SPARQL endpoint of WikiPathways

SBML-importer-plugin

SBML importer Plugin for PathVisio allows researchers to visualize and overlay data on the same pathway models which they use in simulation experiments

shiny-examples

SQL-Server-R-Services-Samples

Advanced analytics samples and templates using SQL Server R Services

twitter-bootstrap-hover-dropdown

An unofficial Twitter Bootstrap plugin to enable Twitter Bootstrap dropdowns to activate on hover and provide a nice user experience.

Utilities

Useful script for random things

WPpsimiCoverter

Obtain Interactions from WikiPathways in a PSI-MITAB format

WPWS

Scripts to get information from WikiPathways pathways, such as number of genes, proteins, metabolites, interactions etc.

write-good

Naive linter for English prose