☆32Mar 3, 2024Updated last year
Alternatives and similar repositories for deepseed
Users that are interested in deepseed are comparing it to the libraries listed below
Sorting:
- Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics☆25Jun 3, 2025Updated 8 months ago
- ☆13Apr 7, 2023Updated 2 years ago
- ☆12Feb 22, 2022Updated 4 years ago
- Promoter activity measurement and modeling; artificial promoter design and testing☆13Mar 24, 2023Updated 2 years ago
- Python wrapper for MaxEntScan to calculate splice site strength.☆17Jul 8, 2022Updated 3 years ago
- NeuronMotif: deciphering cis-regulatory codes by layerwise demixing of deep neural networks☆15Jun 19, 2023Updated 2 years ago
- ☆44Feb 11, 2026Updated 2 weeks ago
- ☆16Nov 25, 2019Updated 6 years ago
- ☆19Dec 15, 2023Updated 2 years ago
- Dynamic Analysis of Alternative Polyadenylation from single-cell RNA-seq (scDaPars)☆18May 25, 2021Updated 4 years ago
- Fully Automated and Standardized (FAST) iCLIP analysis pipeline.☆22Oct 7, 2017Updated 8 years ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆22Jun 28, 2024Updated last year
- Enlightener, the cutting-edge Retrieval-Augmented Generation (RAG) system that revolutionizes query responses. By combining the power of …☆14Jul 28, 2025Updated 7 months ago
- ☆14Feb 21, 2026Updated last week
- ☆21Feb 13, 2020Updated 6 years ago
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆24Jun 26, 2024Updated last year
- miRge - microRNA alignment software for small RNA-seq data, now at v2.0☆28Mar 23, 2022Updated 3 years ago
- Software for predicting translation initiation rates in bacteria☆31Jul 30, 2025Updated 7 months ago
- Analysis notebooks for the Covid-19 meta analysis that accompanies the Nature Medicine publication "Single-cell meta-analysis of SARS-CoV…☆25Dec 22, 2020Updated 5 years ago
- Species-aware DNA language models capture regulatory elements and their evolution☆28Aug 21, 2023Updated 2 years ago
- Single-cell Scalable Visualization and Analytics☆27Mar 26, 2019Updated 6 years ago
- Microbial Whole Genome Sequence data analysis labs for 2014☆29Jul 31, 2020Updated 5 years ago
- ☆27Apr 15, 2025Updated 10 months ago
- Pipeline for Universal Mapping of ATAC-seq☆25Sep 23, 2025Updated 5 months ago
- This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'☆96Jul 11, 2023Updated 2 years ago
- ☆25Aug 20, 2024Updated last year
- hyb: a bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data☆13Jul 12, 2024Updated last year
- Toolset for training quantitative sequence to function models.☆23Mar 15, 2024Updated last year
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆28Feb 21, 2023Updated 3 years ago
- A fast dataloader for bigwig files made for machine learning☆29Dec 16, 2025Updated 2 months ago
- ☆29May 15, 2023Updated 2 years ago
- An R package to infer and analyze synteny networks from protein sequences☆36Jul 23, 2025Updated 7 months ago
- Deep Exploration Networks - Diverse Deep Generative Models for DNA, RNA and Protein Sequences☆31Oct 1, 2021Updated 4 years ago
- AdaLLM is an NVFP4-first inference runtime for Ada Lovelace (RTX 4090) with FP8 KV cache and custom decode kernels. This repo targets NVF…☆94Feb 15, 2026Updated last week
- A method for analyzing scATAC-seq experiments.☆34Jun 20, 2025Updated 8 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Aug 10, 2021Updated 4 years ago
- ☆74Oct 19, 2024Updated last year
- MicrobiomeReview☆11Jun 6, 2023Updated 2 years ago
- Ressources for Boinformatics Trainings☆12Nov 20, 2023Updated 2 years ago