Biomni: a general-purpose biomedical AI agent
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DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
- tensorflow
- deep-neural-network
- genomics
- science
Code for running RFdiffusion
Repository for the main Dockerfile with the OpenWorm software stack and project-wide issues
- openworm
- elegans
- biology
- simulation
Single-cell analysis in Python. Scales to >100M cells.
- machine-learning
- data-science
- visualize-data
- transcriptomics
NeuroKit2: The Python Toolbox for Neurophysiological Signal Processing
- python
- ecg
- eda
- emg
This package contains deep learning models and related scripts for RoseTTAFold
Chai-1, SOTA model for biomolecular structure prediction
Data intensive science for everyone.
Deep probabilistic analysis of single-cell and spatial omics data
- scrna-seq
- variational-bayes
- variational-autoencoder
- cite-seq
Cloud-native genomic dataframes and batch computing
- genetics
- vcf
- genomics
- gwas
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
- kmer
- dnabert-model
- kmer-format
- gpu
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
- deep-learning
- protein-sequences
- protein-structure
- semi-supervised-learning
Spatial Single Cell Analysis in Python
- single-cell-rna-seq
- single-cell-genomics
- spatial-transcriptomics
- spatial-analysis
Generative biopolymer design with rich conditioning.
Graph-linked unified embedding for single-cell multi-omics data integration
- bioinformatics
- deep-learning
- single-cell
- single-cell-multiomics
Benchmarking analysis of data integration tools
GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
The repository host gives no description.
UCE is a zero-shot foundation model for single-cell gene expression data
Schema and generated objects for biolink data model and upper ontology
- biolink
- monarchinitiative
- gene-ontology
- datamodel
A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
MOGONET (Multi-Omics Graph cOnvolutional NETworks) is a novel multi-omics data integrative analysis framework for classification tasks in biomedical applications.
Open source tumor evidence matching for sequencing labs and hospitals without molecular tumor boards. Research prototype; oncologist review required.
- bioinformatics
- cancer-research
- computational-biology
- drug-repurposing