A collaboratively written review paper on deep learning, genomics, and precision medicine
Webserver for ADAGE models.
Manuscript for the Sci-Hub Coverage Study
Source code and data analyses for the Sci-Hub Coverage Study
Collecting data on whether library access to scholarly literature
Extracting when a compound treats a disease from the literature with Snorkel
The manuscript bot for automated scholarly publishing
Building classifiers using cancer transcriptomes across 33 different cancer-types
Materials for GCB535 at Penn.
Clone me to create your manuscript
Onboarding materials for the Greene Lab
Overrepresentation analysis for KEGG and PID pathways using community detection
This repository is in support of the PathCORE-T paper (https://doi.org/10.1101/147645). It contains all the code and necessary data/metadata to repeat all analyses in the paper.
Manubot 2018 development proposal
Pipeline analysis for whole exome sequencing of pancreatic cancer PDX models
d3-based gene network visualization
Training and evaluating a variational autoencoder for pan-cancer gene expression data
Privacy-preserving generative deep neural networks support clinical data sharing
Data for the Sci-Hub Stats Browser
Manuscript describing the Deep Review Collaborative Workflow and Manubot System
Scripts to automate deployment of an adage-server instance
Two or three subtypes of high grade serous ovarian cancer subtypes fit data from different populations better than four
Methods to build a network of pathway co-occurrence relationships out of expression signatures extracted from transcriptomic compendia.