tanjimin / C.Origami
C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
☆72Updated 8 months ago
Alternatives and similar repositories for C.Origami:
Users that are interested in C.Origami 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
- ☆27Updated last month
- Computational Optimization of DNA Activity (CODA)☆56Updated 2 months ago
- code to run sei and obtain sei and sequence class predictions☆99Updated 2 years ago
- A modular framework for multimodal cross-cell-type transcriptional regulation models☆63Updated 2 weeks ago
- deep learning-inspired explainable sequence model for transcription initiation☆93Updated 2 weeks ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆85Updated 5 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆57Updated last year
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆16Updated 2 months ago
- A list of positions (mostly biology-related) open to apply☆34Updated 4 months ago
- R package to access DoRothEA's regulons☆142Updated last year
- Scripts + resources for analyzing combinatorial Hi-C data☆29Updated 5 years ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆47Updated last month
- Compute generation probabilities of CDR3 amino acid and nucleotide sequences☆50Updated 3 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆146Updated last month
- Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets☆36Updated 11 months ago
- Notes on single-cell Hi-C technologies, tools, and data☆76Updated 5 months ago
- Geometry-preserving random sampling☆80Updated 4 months ago
- ☆19Updated 7 months ago
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆82Updated 2 weeks ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆67Updated 2 weeks ago
- Multi-omic velocity inference☆109Updated 4 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated 10 months ago
- Epimap processing and analysis code repository☆33Updated 2 years ago
- Grouping of Lymphocyte Interactions by Paratope Hotspots☆91Updated 4 years ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆24Updated 5 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆42Updated 2 months ago
- RNA-seq prediction with deep convolutional neural networks.☆131Updated 3 months ago
- ☆37Updated 2 years ago
- Code related to the Celligner manuscript☆46Updated 4 years ago