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132 search results found

Cs Video Courses ⭐ 62,887

List of Computer Science courses with video lectures.

Dash ⭐ 19,976

Data Apps & Dashboards for Python. No JavaScript Required.

Deepvariant ⭐ 2,978

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Scanpy ⭐ 1,753

Single-cell analysis in Python. Scales to >1M cells.

Therapeutics Data Commons: Artificial Intelligence Foundation for Therapeutic Science

Anndata ⭐ 495

Annotated data.

Yet another redundant workflow engine

Raxml Ng ⭐ 339

RAxML Next Generation: faster, easier-to-use and more flexible

DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis

Cellrank ⭐ 279

CellRank: dynamics from multi-view single-cell data

Cuneiform ⭐ 215

Cuneiform distributed programming language

Deep learning infrastructure for genomics

Deep Rules ⭐ 198

Ten Quick Tips for Deep Learning in Biology

P2Rank: Protein-ligand binding site prediction tool based on machine learning. Stand-alone command line program / Java library for predicting ligand binding pockets from protein structure.

Deepecg ⭐ 187

ECG classification programs based on ML/DL methods

Awesome Nanopore ⭐ 175

A curated list of awesome nanopore analysis tools.

Awesome Small Molecule Ml ⭐ 148

A curated list of resources for machine learning for small-molecule drug discovery

Pandora ⭐ 127

PANDORA Advanced Machine Learning for Data Integration, Analysis, and Insightful Discoveries in Health and Disease 💻

Dnanalyzer ⭐ 122

Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools

Cellprofiler Analyst ⭐ 115

Open-source software for exploring and analyzing large, high-dimensional image-derived data.

Dna2vec ⭐ 103

dna2vec: Consistent vector representations of variable-length k-mers

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 ⭐ 94

Tutorials on machine learning, artificial intelligence, data science with math explanation and reusable code (in python and R)

Bwa Meme ⭐ 92

BWA-MEME: Faster BWA-MEM2 using learned-index

Race and ethnicity Imputation from Disease history with Deep LEarning

Deepscreen ⭐ 85

DEEPScreen: Virtual Screening with Deep Convolutional Neural Networks Using Compound Images

Awesome Molecular Docking ⭐ 81

We would like to maintain a list of resources which aim to solve molecular docking and other closely related tasks.

Cytomine Core ⭐ 73

Cytomine-Core is the main web server implementing the Cytomine API

Coursera Specializations ⭐ 68

Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody

Neuroseed ⭐ 64

Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)

The repository for the Machine Learning and Big Data with kdb+/q book by Novotny et al.

Contextualized ⭐ 60

A statistical machine learning toolbox for estimating models, distributions, and functions with sample-specific parameters.

Lynnlangit ⭐ 59

Lynn Langit profile

Ontology Tutorial ⭐ 59

Ontology Tutorial

Chembl Downloader ⭐ 55

Write reproducible code for getting and processing ChEMBL

Awesome Structural Bioinformatics ⭐ 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: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions

Bayesian MCMC matrix factorization algorithm

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

Mmtf Workshop 2018 ⭐ 53

Structural Bioinformatics Training Workshop & Hackathon 2018

Support Vector Structural Variation Genotyper

Omiclearn ⭐ 50

🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data

🧬 Toolkit for generating various numerical features of protein sequences

Glycowork ⭐ 46

Package for processing and analyzing glycans and their role in biology.

FABind: Fast and Accurate Protein-Ligand Binding (NeurIPS 2023)

Cell2cell ⭐ 44

User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins

Elucidating the Utility of Genomic Elements with Neural Nets

A computational library for learning and evaluating biological knowledge graph embeddings - please see the main PyKEEN repo at https://github.com/pykeen/pykeen/

Quantum Based Machine Learning Simulation ⭐ 42

A Quantum Computing and Machine Learning Model that accelerates the Drug Research and Development process

Liblevenshtein Java ⭐ 40

Various utilities regarding Levenshtein transducers. (Java)

Aiml In Medicine Club ⭐ 40

Repository for "AI/MD in Medicine" club in clubhouse

Deep Learning based cell composition analysis with Scaden.

Synthetic ⭐ 37

Symbolic Generators for Complex Networks

Antigen.garnish ⭐ 35

Dips Plus ⭐ 34

The Enhanced Database of Interacting Protein Structures for Interface Prediction

Identifying tumor cells at the single-cell level using machine learning

Deepinteract ⭐ 33

A geometric deep learning pipeline for predicting protein interface contacts.

Bisqueucsb ⭐ 33

An ML Platform for storing, analyzing, and visualizing your data all in the browser.

Fast and flexible semi-supervised learning for peptide detection in Python

Interpretable genotype-phenotype landscape modeling

Drug Drug Interaction Prediction ⭐ 30

Drug-Drug Interaction Prediction Based on Knowledge Graph Embeddings and Convolutional-LSTM Network

Rnaseq_titration_results ⭐ 29

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously

BioT5: Enriching Cross-modal Integration in Biology with Chemical Knowledge and Natural Language Associations (EMNLP 2023)

Computational Analysis of Novel Drug Opportunities

A novel management, annotation, and machine learning framework for analyzing cancer mutations

🎀 A data mining suite for gene expression data.

Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)

tiara – a tool for DNA sequence classification

Synthetic lethality (SL) is a promising gold mine for the discovery of anti-cancer drug targets. KG4SL is the first graph neural network (GNN)-based model that uses knowledge graph for SL prediction.

🌎 Review materials for bioinformatics, computational biology, and science in general

Pattern Recognition And Prediction ⭐ 22

本课程带您掌握风靡全球的Python同时，无缝链接机器学习领域的有监督学习之分类、回归，无监督学习之

Visual Machine Learning of Genome-Phenome Associations

R# language is a kind of R liked vectorized language implements on .NET environment for the bioinformatics data analysis

Ai For Bio ⭐ 21

A free and collaborative space for Machine Learning applied to Biology

Cshl Singlecell 2017 ⭐ 20

Single Cell Analysis course at Cold Spring Harbor Laboratory 2017

Repository of our application for human-augmented binning

Peptide Prediction List ⭐ 18

Collects software dedicated to predicting specific properties of peptides

Biosemble ⭐ 17

AI assembly of bioNLP wordnets

Adversarial Relation Classification ⭐ 16

Unsupervised domain adaptation method for relation extraction

Deepcoil ⭐ 16

Fast and accurate prediction of coiled coil domains in protein sequences.

Biolitmap ⭐ 16

Code for the paper "BIOLITMAP: a web-based geolocated and temporal visualization of the evolution of bioinformatics publications" in Oxford Bioinformatics.

Graph Part ⭐ 16

A biological sequence data partitioning method

Generating biologically informed neural networks

Ml_medbioinfo ⭐ 15

Machine Learning in Medical Bioinformatics

VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.

Pkdocclassifier ⭐ 14

Binary classifier to identify scientific publications reporting pharmacokinetic parameters estimated in vivo

Transmembrane proteins predicted through Language Model embeddings

Sars Cov 2_b.1.1.529_spike Rbd_predictions ⭐ 14

AlphaFold2 and RoseTTAFold predictions of the SARS-CoV-2 B.1.1.529 variant Spike protein with HADDOCK antibody interactions

Clustassess ⭐ 13

Tools for assessing clustering robustness

Tensorflow Dnns For Predicting Dna Transcription Factor Binding ⭐ 13

Deep neural networks implemented in TensorFlow & Python for predicting whether transcription factors will bind to given DNA sequences

Gene Oracle ⭐ 13

Feature extraction algorithm for genomic data

🤖 A Python Package for generating new patient representations driven by data and prior knowledge

Snakemake workflow for comparison of differential abundance ranks

Orbitalfeatures ⭐ 13

A sparsity aware implementation of "Biological Network Comparison Using Graphlet Degree Distribution" (Bioinformatics 2007)

Chrysalis ⭐ 13

Powerful and lightweight package to identify tissue compartments in spatial transcriptomics datasets.

lib310 python package

Pypythia ⭐ 11

Lightweight python library for predicting the difficulty of alignments in phylogenetics

Protein Feature Extraction ⭐ 10

Python code to extract features from Protein sequences for Machine Learning/Deep Learning

(Multiblock) Partial Least Squares Regression for Python

Fast Bayesian Hidden Markov Model with Wavelet Compression

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