d-laub / basenji2-pytorchLinks
PyTorch implementation of Basenji2.
☆19Updated 9 months ago
Alternatives and similar repositories for basenji2-pytorch
Users that are interested in basenji2-pytorch are comparing it to the libraries listed below
Sorting:
- deep learning-inspired explainable sequence model for transcription initiation☆100Updated 10 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆91Updated 2 months ago
- ☆34Updated last year
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated 2 years ago
- ☆26Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆72Updated 2 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆26Updated 5 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆86Updated 4 months ago
- code to run sei and obtain sei and sequence class predictions☆111Updated 3 years ago
- Computational Optimization of DNA Activity (CODA)☆67Updated 9 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Updated last week
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆94Updated 11 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆82Updated last year
- A tool for visualising kmers in 2D space.☆12Updated 11 months ago
- This repository hosts a minimal version of a Python API for BPNet.☆53Updated last week
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 10 months ago
- ☆25Updated last year
- Machine learning methods for DNA sequence analysis.☆57Updated 5 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆91Updated 3 months ago
- ☆18Updated last year
- ☆42Updated this week
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆207Updated 4 months ago
- Biological sequence analysis for the modern age.☆261Updated last week
- Elucidating the Utility of Genomic Elements with Neural Nets☆69Updated last year
- A deep learning approach to predicting transcription initiation from sequence at single nucleotide resolution☆14Updated last month
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆57Updated this week
- ☆87Updated 2 months ago
- ☆25Updated 4 months ago
- RNA-seq prediction with deep convolutional neural networks.☆221Updated 5 months ago