tanjimin / C.OrigamiLinks
C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
☆78Updated last year
Alternatives and similar repositories for C.Origami
Users that are interested in C.Origami are comparing it to the libraries listed below
Sorting:
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 6 months ago
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- ☆32Updated 7 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆89Updated 11 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆178Updated last week
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆84Updated 3 weeks ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 5 months ago
- Scripts + resources for analyzing combinatorial Hi-C data☆30Updated 5 years ago
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆92Updated 6 months ago
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆18Updated 2 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 10 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆73Updated last week
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- ☆38Updated 2 years ago
- This repository hosts a minimal version of a Python API for BPNet.☆49Updated 3 weeks ago
- ☆76Updated 2 months ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆98Updated last week
- Computational Optimization of DNA Activity (CODA)☆61Updated 5 months ago
- A modular framework for multimodal cross-cell-type transcriptional regulation models☆89Updated last month
- ☆48Updated 2 weeks ago
- ☆24Updated last year
- Notes on single-cell Hi-C technologies, tools, and data☆82Updated 11 months ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆164Updated last year
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 7 months ago
- ChromBERT: A pre-trained foundation model for context-specific transcription regulatory network☆16Updated 3 months ago
- ☆26Updated 5 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆46Updated this week
- Grouping of Lymphocyte Interactions by Paratope Hotspots☆97Updated 4 years ago