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Search results for deep learning bioinformatics
bioinformatics
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deep-learning
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104 search results found
Cs Video Courses
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62,887
List of Computer Science courses with video lectures.
Deepvariant
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2,978
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Awesome Deepbio
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1,467
A curated list of awesome deep learning applications in the field of computational biology
Deep_gcns_torch
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940
Pytorch Repo for DeepGCNs (ICCV'2019 Oral, TPAMI'2021), DeeperGCN (arXiv'2020) and GNN1000(ICML'2021): https://www.deepgcns.org
Graphein
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932
Protein Graph Library
Tdc
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889
Therapeutics Data Commons: Artificial Intelligence Foundation for Therapeutic Science
Deeppurpose
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826
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
Dgl Lifesci
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558
Python package for graph neural networks in chemistry and biology
Deep_learning_examples
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367
Examples of using deep learning in Bioinformatics
Glue
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294
Graph-linked unified embedding for single-cell multi-omics data integration
Dance
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284
DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis
Scgen
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215
Single cell perturbation prediction
Janggu
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205
Deep learning infrastructure for genomics
Deep Rules
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198
Ten Quick Tips for Deep Learning in Biology
Deepecg
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187
ECG classification programs based on ML/DL methods
Deepconsensus
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180
DeepConsensus uses gap-aware sequence transformers to correct errors in Pacific Biosciences (PacBio) Circular Consensus Sequencing (CCS) data.
Proteinflow
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151
Versatile computational pipeline for processing protein structure data for deep learning applications.
Clairvoyante
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142
Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
Deeplearning In Bioinformatics
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104
For anyone who are eager to applying deep learning in bioinformatics!
Saber
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100
Saber is a deep-learning based tool for information extraction in the biomedical domain. Pull requests are welcome! Note: this is a work in progress. Many things are broken, and the codebase is not stable.
Tutorial
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94
Tutorials on machine learning, artificial intelligence, data science with math explanation and reusable code (in python and R)
Riddle
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91
Race and ethnicity Imputation from Disease history with Deep LEarning
Semibin
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89
SemiBin: metagenomics binning with self-supervised deep learning
Deepscreen
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85
DEEPScreen: Virtual Screening with Deep Convolutional Neural Networks Using Compound Images
Awesome Molecular Docking
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81
We would like to maintain a list of resources which aim to solve molecular docking and other closely related tasks.
Plant Seg
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81
A tool for cell instance aware segmentation in densely packed 3D volumetric images
Ohmnet
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75
OhmNet: Representation learning in multi-layer graphs
Cell_blast
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74
A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
Clair
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74
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
Af2complex
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72
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
Coursera Specializations
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68
Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody
Deep Learning For Clustering In Bioinformatics
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62
Deep Learning-based Clustering Approaches for Bioinformatics
Deepmicrobes
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61
DeepMicrobes: taxonomic classification for metagenomics with deep learning
Guideline For Computational Biology And Bioinformatics
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60
Awesome Structural Bioinformatics
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54
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
Neodti
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54
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
Slat
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52
Spatial-Linked Alignment Tool
Dna Nn
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51
Model and predict short DNA sequence features with neural networks
Maui
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47
Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
Deepsomatic
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45
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal sequencing data.
Eugene
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44
Elucidating the Utility of Genomic Elements with Neural Nets
Clairs
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42
ClairS - a deep-learning method for long-read somatic small variant calling
Scaden
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40
Deep Learning based cell composition analysis with Scaden.
Molgraph
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34
Graph neural networks for molecular machine learning. Implemented and compatible with TensorFlow and Keras.
Dips Plus
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34
The Enhanced Database of Interacting Protein Structures for Interface Prediction
Deepmosaic
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34
DeepMosaic is a deep-learning-based mosaic single nucleotide classification tool without the need of matched control information.
Bisqueucsb
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33
An ML Platform for storing, analyzing, and visualizing your data all in the browser.
Deepinteract
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33
A geometric deep learning pipeline for predicting protein interface contacts.
Drug Drug Interaction Prediction
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30
Drug-Drug Interaction Prediction Based on Knowledge Graph Embeddings and Convolutional-LSTM Network
Deeprtplus
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30
Deep (Transfer) Learning for Peptide Retention Time Prediction
Skyhawk
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29
An Artificial Neural Network-based discriminator for validating clinically significant genomic variants
Manyfold
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28
🧬 ManyFold: An efficient and flexible library for training and validating protein folding models
Omicselector
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26
OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.
Virnet
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26
VirNet: A deep attention model for viral reads identification
Tape
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25
Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)
Paccmann_datasets
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24
pytoda - PaccMann PyTorch Dataset Classes. Read the docs: https://paccmann.github.io/paccmann_datasets/
Chromoformer
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24
The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
Aptasuite
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20
A full-featured bioinformatics software collection for the comprehensive analysis of aptamers in HT-SELEX experiments.
Gedfn
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19
GEDFN: Graph-Embedded Deep Feedforward Network
Coding_excercises
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19
A public repo for slides and exercise for the "Introduction to deep learning for biologists" Physalia course, by Nelson Nazzicari and Filippo Biscarini
Clairs To
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18
ClairS-TO - a deep-learning method for tumor-only somatic SNV calling
Peptide Prediction List
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18
Collects software dedicated to predicting specific properties of peptides
Eternabrain
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16
Deep learning to solve RNA design puzzles
Binn
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15
Generating biologically informed neural networks
Tmbed
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14
Transmembrane proteins predicted through Language Model embeddings
Sars Cov 2_b.1.1.529_spike Rbd_predictions
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14
AlphaFold2 and RoseTTAFold predictions of the SARS-CoV-2 B.1.1.529 variant Spike protein with HADDOCK antibody interactions
Vespa
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14
VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.
Bmi219 2017 Proteinfolding
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14
UCSF BMI219 Deep Learning (2017), Coding example (Prediction of protein folding with RNN and CNN)
Deepsea
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14
DeepSEA in TensorFlow
Synopsys Project 2017
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14
A deep learning based bioinformatics project on epigenetics in Type 2 Diabetes.
Lib310
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13
lib310 python package
Gene Oracle
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13
Feature extraction algorithm for genomic data
Dna Sequence Classification
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12
Analysis of DNA Sequence Classification Using Neural Networks - Bioinformatics Course Project - Winter 2022
Clair3 Trio
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12
Clair3-Trio: variant calling in trio using Nanopore long-reads
Smpl
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10
Protein Feature Extraction
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10
Python code to extract features from Protein sequences for Machine Learning/Deep Learning
Renet2
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10
RENET2: High-Performance Full-text Gene-Disease Relation Extraction with Iterative Training Data Expansion
Dl Based Tumor Classification
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10
Deep Learning Based Tumor Type Classification Using Gene Expression Data
Connet
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10
CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
Pedl
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9
Search the biomedical literature for protein interactions and protein associations
Pocket2drug
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9
Pytorch implementation of Pocket2Drug: a generative deep learning model to predict binding drugs for ligand-binding sites.
Deep Purpose Tutorial
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9
Repository for the HackBio'2021 Internship for Team Drug-Development-A
Diffusion Hopping
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9
DiffHopp: A Graph Diffusion Model for Novel Drug Design via Scaffold Hopping
Gcgc
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8
An ML-feature processing library for biological sequences.
Awesome Ml For Biochemistry
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8
Community-curated resources for research at the intersection of AI and molecular sciences
Deepbio
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8
This is a curated list of tutorials, projects, libraries, videos, papers, books and anything related to applications of Deep Learning to biomedicine. Feel free to make a pull request to contribute to this list.
Acp Dl
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8
A deep learning model to predict anticancer peptides.
Toxinpred2
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8
An improved method for predicting toxicity of proteins
Genet
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8
Python library for genome editing and CRISPR research
All Subtype Classification
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8
A Fast and Efficient CNN Model for B-ALL Diagnosis and its Subtypes Classification using Peripheral Blood Smear Images
Imageclef Toolkit
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7
A toolkit for the research group's participations on the ImageCLEF challenges
Convolutional Embedded Networks
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7
Convolutional Embedded Networks for Population Scale Clustering and Bio-ancestry Inferencing
Bifusion
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7
Refdnn
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7
RefDNN: a reference drug based neural network for more accurate prediction of anticancer drug resistance (Scientific Reports)
Pocket Cfdm
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6
Augmenting a training dataset of the generative diffusion model for molecular docking with artificial binding pockets
Inpactor2
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6
Inpactor2: LTR retrotransposon detector and classificator using Deep Learning
Rnaglib
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6
Datasets and analysis tools for RNA 3D and 2.5D structures.
Mamnet
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6
MAMnet uses a deep learning network to call genetic variants from third generation DNA sequencing data.
Pathway2vec
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5
Leveraging Heterogeneous Network Embedding for Metabolic Pathway Prediction
Enzyme Classification
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5
Predict the enzyme class of a given FASTA sequence using deep learning methods including CNNs, LSTM, BiLSTM, GRU, and attention models along with a host of other ML methods.
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