UC, San Diego Trey Ideker Lab
Bioinformatics software projects developed by UCSD Trey Ideker lab
La Jolla, CA USA
Pinned Repositories
cy-rest-R
Example R script to use Cytoscape via RESTful API module.
cyREST
DEPRECATED. Please visit our new repository (cytoscape/cyREST)
DCell
DCell browser and gene deletion simulator
DrugCell
A visible neural network model for drug response prediction
hiview
HiView: the universal viewer for hierarchical data
MuSIC
Multi-Scale Integrated Cell
Network_Evaluation_Tools
Python 2.7 package with examples for evaluating a network's ability to group a given node set in network proximity.
pyNBS
Python 2.7 implementation of network-based stratification (NBS) algorithm from Hofree et al (Nature Methods 2013)
TCRP
Few shot learning for cancer
vizbi-2015
Sample data and notebooks for VIZBI 2015 tutorial session
UC, San Diego Trey Ideker Lab's Repositories
idekerlab/DrugCell
A visible neural network model for drug response prediction
idekerlab/KEGGscape
A Cytoscape app for importing KGML(KEGG pathway XML)
idekerlab/heat-diffusion
idekerlab/llm_evaluation_for_gene_set_interpretation
Code space for 'Evaluation of large language models for discovery of gene set function'
idekerlab/cy-net-share
A simple web application to share network files generated with Cytoscape.
idekerlab/nest_vnn
NeST-VNN repo
idekerlab/web.cytoscape
New version of cyNetShare
idekerlab/cellmaps_pipeline
idekerlab/auto-graph-visualizer
Automatic graph visualizer for the Cytoscape ecosystem
idekerlab/large-graph-renderer
Webpack version of LGR
idekerlab/multitask_vnn
Multi-task learning VNN
idekerlab/cdhidef
idekerlab/cellmaps_annotate_hierarchy
idekerlab/cellmaps_utils
idekerlab/GSAI
idekerlab/network-viewer
idekerlab/qfieldlayout
idekerlab/cellmaps_coembedding
idekerlab/cellmaps_hierarchyeval
Code for hierarchy evaluation
idekerlab/cdapsutil
idekerlab/cdiquerygenestoterm
idekerlab/cellmaps_generate_hierarchy
idekerlab/cellmaps_image_embedding
idekerlab/cellmaps_imagedownloader
idekerlab/cellmaps_ppi_embedding
idekerlab/cellmaps_ppidownloader
idekerlab/cellmaps_vnn
idekerlab/cookiecutter-musicpypackage
idekerlab/hicomp
idekerlab/ndex-edge-filter4Hiview
An edge filtering service for Hiview.