Transcription Factor Motif Instance Neighborhood Decomposition and Interpretation
☆28Oct 12, 2026Updated 2 weeks ago
Alternatives and similar repositories for TF-MINDI
Users that are interested in TF-MINDI are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆84Oct 21, 2026Updated last week
- systematic explanation of attribution-based mechanisms for regulatory genomics☆17Sep 16, 2026Updated last month
- ☆30Dec 10, 2025Updated 10 months ago
- Deep learning for single-cell Gene Regulatory Networks☆15Oct 13, 2026Updated 2 weeks ago
- Code for the analysis performed in the paper "Deep learning the cis-regulatory code of chromatin dynamics during cellular reprogramming" …☆18Oct 16, 2025Updated last year
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Identifying transcription factor binding sites from neural network contribution scores☆28Aug 26, 2026Updated 2 months ago
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆23Oct 4, 2026Updated 3 weeks ago
- TF MOtif Discovery from Importance SCOres☆196Oct 16, 2026Updated 2 weeks ago
- A multimodal model predicting chromatin-associated proteins binding on the human genome.☆28May 5, 2026Updated 5 months ago
- Repository to ZIP Plink2 LD files and have random access☆17Aug 12, 2026Updated 2 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Jan 22, 2025Updated last year
- Parse ArchR arrow files to anndata h5ad☆17Dec 14, 2023Updated 2 years ago
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆22Mar 2, 2026Updated 7 months ago
- In-silico Saturation Mutagenesis implementation with 10x or more speedup for certain architectures.☆24Jun 18, 2022Updated 4 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- ☆17Oct 22, 2026Updated last week
- One interface to nine genomic deep-learning oracles — variant effect prediction, calibrated per-track percentiles, and plain-English anal…☆72Oct 15, 2026Updated 2 weeks ago
- ☆11Mar 9, 2025Updated last year
- Steamboat is an interpretable framework to study multiscale cellular interactions in tissues☆11Oct 21, 2026Updated last week
- PARM: Promoter Activity Regulatory Model☆27Jul 27, 2026Updated 3 months ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆260Jun 9, 2026Updated 4 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆88Sep 15, 2026Updated last month
- pycistarget is a python module to perform motif enrichment analysis in sets of regions with different tools and identify high confidence …☆22Updated this week
- Benchmark of GRNs using the GRETA pipeline☆33Jun 9, 2026Updated 4 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Context specific and dynamic gene regulatory network reconstruction and analysis☆135Aug 3, 2026Updated 2 months ago
- ☆37Oct 4, 2024Updated 2 years ago
- ☆52Oct 19, 2026Updated last week
- ☆14Jan 23, 2025Updated last year
- Gene regulatory network inference for RNA velocity and pseudotime data☆29Nov 6, 2025Updated 11 months ago
- A Python Framework for Modeling and Analysis of Signaling Systems☆30Oct 19, 2026Updated last week
- GAME was designed for the functional genomics community to create seamless communication across pre-trained models and genomics datasets.…☆23Updated this week
- Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data☆11Jul 6, 2026Updated 3 months ago
- A reproducible Nextflow DSL2 framework for standardized deployment, execution, and evaluation of single-cell foundation models (scFMs) wi…☆10Sep 3, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Code & documentation for Multiomics and deep learning dissect regulatory syntax in human development (Liu*, Jessa*, Kim*, Ng*, et al, Nat…☆34Jul 17, 2026Updated 3 months ago
- ☆70Apr 22, 2026Updated 6 months ago
- Biological sequence analysis for the modern age.☆329Oct 20, 2026Updated last week
- Awesome GRN enhanced AnnData toolkit☆13Feb 19, 2026Updated 8 months ago
- A generative model to predict gene expression dynamics, cell population changes, and perturbation outcomes from time-series single-cell d…☆15Apr 17, 2025Updated last year
- "Global Importance Analysis: A Method to Quantify Importance of Genomic Features in Deep Neural Networks" by Koo et al.☆15Jun 22, 2022Updated 4 years ago
- ☆82Updated this week