Genentech / decima
Decima is a Python library to train sequence models on single-cell RNA-seq data.
☆24Updated 5 months ago
Alternatives and similar repositories for decima:
Users that are interested in decima are comparing it to the libraries listed below
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆38Updated 3 months ago
- ☆19Updated 6 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆40Updated last month
- Unsupervised Deep Disentangled Representation of Single-Cell Omics☆38Updated this week
- CellWhisperer bridges the gap between transcriptomics data and natural language, enabling intuitive interaction with scRNA-seq datasets☆51Updated 4 months ago
- Single cell omics biology annotations☆50Updated this week
- Dataloader for applying sequence models to personalized genomics☆22Updated this week
- This repository hosts a minimal version of a Python API for BPNet.☆37Updated last week
- ☆29Updated 2 weeks ago
- ☆51Updated last year
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆32Updated this week
- ☆57Updated 5 months ago
- Molecular interactions inference from single-cell multi-omics data☆22Updated 4 months ago
- Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).☆19Updated last month
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆61Updated 10 months ago
- A modular framework for multimodal cross-cell-type transcriptional regulation models☆61Updated last week
- ☆71Updated this week
- A method for analyzing scATAC-seq experiments.☆27Updated last week
- Python implementation of Milo for differential abundance testing on KNN graph☆63Updated 3 weeks ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Gene group activity utility functions for Scanpy☆68Updated 2 months ago
- ☆25Updated 9 months ago
- Spatial reconstruction of dissociated single-cell data☆17Updated last year
- Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens☆41Updated last year
- ☆27Updated last month
- pseudobulking on an AnnData object☆28Updated last year
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆67Updated last week
- R implementation of GeneTrajectory☆53Updated 11 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆38Updated 2 months ago
- Computational Optimization of DNA Activity (CODA)☆56Updated 2 months ago