Resources
- Cell Type Deconvolution Deconvolve cell type using scRNAseq-derived cell type signatures
- AKLIMATE Algorithm for Kernel Learning with Integrative Modulesof Approximating Tree Ensembles
- LURE Learning UnRealized Events: Finding Equivalent Driver Mutation Events using Supervised Machine Learning
- PLATYPUS
- A multiview framework to predict outcomes in cancer cells.
- Docker Hub
- Stuart Lab on Docker Hub
- pCHIPS
- Patient Cancer Hallmark Integrated Phospho Signature
- PARADIGM
- Pathway Recognition Algorithm using Data Integration on Genomic Models
- PARADIGM scripts
- Wrapper scripts for running paradigm jobs.
- PathMark scripts
- Scripts for running PathMark.
- Paradigm-Shift scripts
- Scripts for running Paradigm-Shift.
SCIMITAR
Tracing co-regulatory network evolution in noisy, single-cell transcriptome trajectories
- TieDIE
- Identify linking networks and pathways between sets of functionally related genes with the Tied Diffusion of Interacting Events (TieDIE) algorithm.
- The Interaction Browser
- The Interaction Browser is a web application for visualizing biological pathways and networks.
- Cluegene
- Cluegene is a collaborative filtering-based gene recommendation system which uses pre-computed clusters of genes to recommend new genes for a query pathway.