Identifying transcription factor binding sites from neural network contribution scores
☆28Aug 26, 2026Updated last month
Alternatives and similar repositories for Fi-NeMo
Users that are interested in Fi-NeMo are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code & documentation for Multiomics and deep learning dissect regulatory syntax in human development (Liu*, Jessa*, Kim*, Ng*, et al, Nat…☆34Jul 17, 2026Updated 2 months ago
- A command-line tool for reading SAM/BAM files and converted them directly to bigwig files.☆25Oct 6, 2026Updated last week
- This repository hosts a minimal version of a Python API for BPNet.☆60Jul 19, 2026Updated 2 months ago
- 🌈 Alluvial plot untangling☆33Sep 21, 2026Updated 3 weeks ago
- ☆13Aug 13, 2024Updated 2 years 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.
- GAME was designed for the functional genomics community to create seamless communication across pre-trained models and genomics datasets.…☆23Aug 26, 2026Updated last month
- Transcription Factor Motif Instance Neighborhood Decomposition and Interpretation☆28Updated this week
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆82Oct 2, 2026Updated last week
- A lightweight reimplementation of some of the algorithms in the MEME suite in Python.☆39Sep 29, 2026Updated 2 weeks ago
- ☆52Sep 30, 2026Updated 2 weeks ago
- A method for analyzing scATAC-seq experiments.☆33Jun 20, 2025Updated last year
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Jan 11, 2025Updated last year
- TF MOtif Discovery from Importance SCOres☆193Oct 1, 2026Updated last week
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆36May 23, 2026Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆14Jan 23, 2025Updated last year
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆102Sep 9, 2025Updated last year
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆21Mar 2, 2026Updated 7 months ago
- Repository for edgePython which is a Python implementation of the Bioconductor edgeR package for differential analysis of genomics count …☆97Aug 21, 2026Updated last month
- Context specific and dynamic gene regulatory network reconstruction and analysis☆134Aug 3, 2026Updated 2 months ago
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆69Aug 10, 2026Updated 2 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Jan 22, 2025Updated last year
- ☆11Oct 6, 2017Updated 9 years ago
- Biological sequence analysis for the modern age.☆323Updated this week
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Package to detect eQTLs jointly in multiple subgroups (e.g. tissues) via Bayesian Model Averaging.☆24Apr 16, 2018Updated 8 years ago
- ☆20Updated this week
- a minimal, scriptable genome browser for python☆55Dec 20, 2024Updated last year
- A python package for chromVAR☆35May 1, 2023Updated 3 years ago
- ☆12Oct 4, 2021Updated 5 years ago
- scAce: an adaptive embedding and clustering method for scRNA-seq data☆12Sep 8, 2023Updated 3 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆257Jun 9, 2026Updated 4 months ago
- In-silico Saturation Mutagenesis implementation with 10x or more speedup for certain architectures.☆24Jun 18, 2022Updated 4 years ago
- ☆52Mar 22, 2026Updated 6 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆22Oct 4, 2026Updated last week
- Toolkit for QTL mapping and meta-analysis.☆17May 24, 2022Updated 4 years ago
- Pipeline to run scE2G☆66Oct 3, 2026Updated last week
- Enhancer-Gene Prediction Pipeline based on logistic regression and ABC model☆35Sep 25, 2026Updated 2 weeks ago
- systematic explanation of attribution-based mechanisms for regulatory genomics☆17Sep 16, 2026Updated 3 weeks ago
- scDoRI (single-cell Deep multi-Omic Regulatory Inference) is a deep learning model to infer enhancer-mediated gene regulatory networks (e…☆39Aug 15, 2026Updated last month
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆30Feb 21, 2023Updated 3 years ago