peace195 / Multitask Learning Protein Prediction
Multitask learning: protein secondary structure prediction, b-values prediction and solvent-accessibility prediction
Stars: ✭ 19
Programming Languages
python
139335 projects - #7 most used programming language
Projects that are alternatives of or similar to Multitask Learning Protein Prediction
Ner Lstm
Named Entity Recognition using multilayered bidirectional LSTM
Stars: ✭ 532 (+2700%)
Mutual labels: lstm
Conv Emotion
This repo contains implementation of different architectures for emotion recognition in conversations.
Stars: ✭ 646 (+3300%)
Mutual labels: lstm
Python autocomplete
A simple neural network for python autocompletion
Stars: ✭ 779 (+4000%)
Mutual labels: lstm
Attention Networks For Classification
Hierarchical Attention Networks for Document Classification in PyTorch
Stars: ✭ 540 (+2742.11%)
Mutual labels: lstm
Vad
Voice activity detection (VAD) toolkit including DNN, bDNN, LSTM and ACAM based VAD. We also provide our directly recorded dataset.
Stars: ✭ 622 (+3173.68%)
Mutual labels: lstm
Stockpriceprediction
Stock Price Prediction using Machine Learning Techniques
Stars: ✭ 700 (+3584.21%)
Mutual labels: lstm
Multilabel Timeseries Classification With Lstm
Tensorflow implementation of paper: Learning to Diagnose with LSTM Recurrent Neural Networks.
Stars: ✭ 519 (+2631.58%)
Mutual labels: lstm
Music2dance
Generating Dance steps for given music with deep learning
Stars: ✭ 17 (-10.53%)
Mutual labels: lstm
Ad examples
A collection of anomaly detection methods (iid/point-based, graph and time series) including active learning for anomaly detection/discovery, bayesian rule-mining, description for diversity/explanation/interpretability. Analysis of incorporating label feedback with ensemble and tree-based detectors. Includes adversarial attacks with Graph Convolutional Network.
Stars: ✭ 641 (+3273.68%)
Mutual labels: lstm
Seq2seq Chatbot
Chatbot in 200 lines of code using TensorLayer
Stars: ✭ 777 (+3989.47%)
Mutual labels: lstm
Video Classification
Tutorial for video classification/ action recognition using 3D CNN/ CNN+RNN on UCF101
Stars: ✭ 543 (+2757.89%)
Mutual labels: lstm
Telemanom
A framework for using LSTMs to detect anomalies in multivariate time series data. Includes spacecraft anomaly data and experiments from the Mars Science Laboratory and SMAP missions.
Stars: ✭ 589 (+3000%)
Mutual labels: lstm
Textclassificationbenchmark
A Benchmark of Text Classification in PyTorch
Stars: ✭ 534 (+2710.53%)
Mutual labels: lstm
Deep Learning Time Series
List of papers, code and experiments using deep learning for time series forecasting
Stars: ✭ 796 (+4089.47%)
Mutual labels: lstm
Text Classification
Implementation of papers for text classification task on DBpedia
Stars: ✭ 682 (+3489.47%)
Mutual labels: lstm
Tensorflow Tutorial
Some interesting TensorFlow tutorials for beginners.
Stars: ✭ 893 (+4600%)
Mutual labels: lstm
Getting Things Done With Pytorch
Jupyter Notebook tutorials on solving real-world problems with Machine Learning & Deep Learning using PyTorch. Topics: Face detection with Detectron 2, Time Series anomaly detection with LSTM Autoencoders, Object Detection with YOLO v5, Build your first Neural Network, Time Series forecasting for Coronavirus daily cases, Sentiment Analysis with BERT.
Stars: ✭ 738 (+3784.21%)
Mutual labels: lstm
Descriptions
Multitask learning (secondary structure prediction, b-values prediction, solvent-accessibility prediction) can improve the prediction accuracy of protein secondary structure.
- We have to face with the class imbalance problem
- "foldername_cv": 5 fold cross validation
- Distribution of outputs:
Data
The copyright belongs to http://rostlab.org/. It can not be public.
Data representation
Using Protvec (3-gram) and follow the vector addition rule. For example:
TNCDE = UTN + TNC + NCD + CDE + DEU
Multitask learning model
Results
3 states protein secondary structure)
Multi-task learning (3 tasks, 3 states):
-
Secondary Structure accuracy (3 states): 69.0%
-
Solvent Accessibility accuracy (3 states): 54.6%
-
B-values accuracy (3 states): 59.1%
8 states protein secondary structure
Multi-task learning (3 tasks, 8 states):
-
Secondary Structure accuracy (8 states): 0.476
-
Solvent Accessibility accuracy (3 states): 0.548
-
B-values accuracy (3 states): 0.598
- Secondary structure
- Solvent accessibility
- b-values
Prerequisites
- python 2.7
- tensorflow 1.4.0
- ProtVec
How to run
Go into each subfolder and run the code following:
- python lstm.py
Author
Binh Do
License
This project is licensed under the MIT License
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].