gifford-lab Goto Github PK

6884-antibodies-data

Problem Set 2 Data

6884-junctiontrees

README & code for 6.884 Problem set 1. Please refer to README (below) for instructions to get set up with Google Cloud Datalab. Then download the PS1 Notebook (marked [DOWNLOAD & UPLOAD TO DATALAB]) to begin.

antibody-2019

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. Forked to get automated Docker builds.

caffe-cnn

Caffe-based convolutional neural network

certificate-group-checker

Simple method to protect web content by group name on CSAIL servers.

counterselection

counterselection

cpgenie

deepaccess

Code for training, testing, and motif extraction from multilabel DNA sequence ensemble of convolutional neural networks

deepaccess-package

Methods for training and interpretation of an ensemble of neural networks for multi-task functional prediction of accessibility or histone modifications from DNA sequence.

deepbind-docker

Docker image for the DeepBind method.

deepligand

deepsea-docker

Docker image for the DeepSEA method.

deepsea-predict-docker

Docker image for running DeepSEA for predicting

diminishingreturns

Constrained Submodular Optimization

disentangled

docker_signal_wrapper

A Docker container that properly handles signals and will run in SGE.

ec2-launcher-pro

A tool that lauches docker jobs on Amazon EC2.

ensembleexpr

Winner algorithm for CAGI4 eQTL-causal SNP challenge

factorizablelibrary

Code and data for factorizable libraries

gem

High resolution peak calling and motif discovery for ChIP-seq and ChIP-exo data

gem3

GEM software suite (GEM, GPS, KMAC, KSM, RMD, etc.)

geneprogram

Automated discovery of functional generality of gene expression

gerv

The source code for GERV method

gifford-lab.github.io

New group website.

gram

high-resolution-starrseq

Starrseq Analysis with the Sherwood Lab

idr2d

Irreproducible discovery rate for genomic interaction data

indelphi-dataprocessinganalysis

jupyter-docker-stacks

Opinionated stacks of ready-to-run Jupyter applications in Docker. Forked to add GPU capabilities.