All Projects → harvardnlp → regulatory-prediction

harvardnlp / regulatory-prediction

Licence: BSD-3-Clause license
Code and Data to accompany "Dilated Convolutions for Modeling Long-Distance Genomic Dependencies", presented at the ICML 2017 Workshop on Computational Biology

Programming Languages

python
139335 projects - #7 most used programming language

Projects that are alternatives of or similar to regulatory-prediction

Reservoir
Code for Reservoir computing (Echo state network)
Stars: ✭ 40 (+53.85%)
Mutual labels:  recurrent-neural-networks
EscherConverter
A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.
Stars: ✭ 14 (-46.15%)
Mutual labels:  computational-biology
screenlamp
screenlamp is a Python toolkit for hypothesis-driven virtual screening
Stars: ✭ 20 (-23.08%)
Mutual labels:  computational-biology
fin
finance
Stars: ✭ 38 (+46.15%)
Mutual labels:  recurrent-neural-networks
hypeR
An R Package for Geneset Enrichment Workflows
Stars: ✭ 64 (+146.15%)
Mutual labels:  computational-biology
myokit
Myokit: A simple interface to cardiac cellular electrophysiology
Stars: ✭ 27 (+3.85%)
Mutual labels:  computational-biology
LSTM-Time-Series-Analysis
Using LSTM network for time series forecasting
Stars: ✭ 41 (+57.69%)
Mutual labels:  recurrent-neural-networks
keras-malicious-url-detector
Malicious URL detector using keras recurrent networks and scikit-learn classifiers
Stars: ✭ 24 (-7.69%)
Mutual labels:  recurrent-neural-networks
VariationalNeuralAnnealing
A variational implementation of classical and quantum annealing using recurrent neural networks for the purpose of solving optimization problems.
Stars: ✭ 21 (-19.23%)
Mutual labels:  recurrent-neural-networks
Deep-Learning-Tensorflow
Gathers Tensorflow deep learning models.
Stars: ✭ 50 (+92.31%)
Mutual labels:  recurrent-neural-networks
handson-ml
도서 "핸즈온 머신러닝"의 예제와 연습문제를 담은 주피터 노트북입니다.
Stars: ✭ 285 (+996.15%)
Mutual labels:  recurrent-neural-networks
msk-STAPLE
STAPLE (Shared Tools for Automatic Personalised Lower Extremity modelling) consists of a collection of methods for generating skeletal models from three-dimensional bone geometries, usually segmented from medical images. The methods are currently being expanded to create complete musculoskeletal models.
Stars: ✭ 39 (+50%)
Mutual labels:  computational-biology
ball
The Biochemical Algorithms Library
Stars: ✭ 64 (+146.15%)
Mutual labels:  computational-biology
cobrame
A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
Stars: ✭ 30 (+15.38%)
Mutual labels:  computational-biology
datastories-semeval2017-task6
Deep-learning model presented in "DataStories at SemEval-2017 Task 6: Siamese LSTM with Attention for Humorous Text Comparison".
Stars: ✭ 20 (-23.08%)
Mutual labels:  recurrent-neural-networks
workflows
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
Stars: ✭ 16 (-38.46%)
Mutual labels:  computational-biology
stanford-cs231n-assignments-2020
This repository contains my solutions to the assignments for Stanford's CS231n "Convolutional Neural Networks for Visual Recognition" (Spring 2020).
Stars: ✭ 84 (+223.08%)
Mutual labels:  recurrent-neural-networks
SpeakerDiarization RNN CNN LSTM
Speaker Diarization is the problem of separating speakers in an audio. There could be any number of speakers and final result should state when speaker starts and ends. In this project, we analyze given audio file with 2 channels and 2 speakers (on separate channels).
Stars: ✭ 56 (+115.38%)
Mutual labels:  recurrent-neural-networks
deep-learning
Assignmends done for Udacity's Deep Learning MOOC with Vincent Vanhoucke
Stars: ✭ 94 (+261.54%)
Mutual labels:  recurrent-neural-networks
bruno
a deep recurrent model for exchangeable data
Stars: ✭ 34 (+30.77%)
Mutual labels:  recurrent-neural-networks

regulatory-prediction

Code and Data to accompany "Dilated Convolutions for Modeling Long-Distance Genomic Dependencies", presented at the ICML 2017 Workshop on Computational Biology, by Ankit Gupta and Alexander Rush. Data forthcoming. Please email [email protected] if you have any questions in the meantime.

Current State

Ankit is current working on a unified set of deep learning benchmarks for genomics tasks. All of these results and a cleaned up version of the code will be included with that repository, and it will be linked here. In the meantime, feel free to email us if you have any questions.

Dependencies

  • Python 2.7 (3.x should also work but not thoroughly tested)
  • Tensorflow 1.0
  • Numpy 1.12.0
  • Scipy 0.17.1

Usage

Run python train.py

Note that the project description data, including the texts, logos, images, and/or trademarks, for each open source project belongs to its rightful owner. If you wish to add or remove any projects, please contact us at [email protected].