A python library for creating simulated regulatory DNA sequences
☆40Feb 22, 2023Updated 3 years ago
Alternatives and similar repositories for simdna
Users that are interested in simdna are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- DNA Archive Simulator (DNArSim) is a memory channel model that simulate the entire DNA Data Storage process: from synthesis to basecallin…☆10Dec 6, 2021Updated 4 years ago
- ☆10Dec 8, 2022Updated 3 years ago
- SPIDER-WEB generates coding algorithms with superior error tolerance and real-time information retrieval capacity☆11Jun 21, 2024Updated 2 years ago
- Code to build models that effectively predict promoter-driven gene expression☆13May 15, 2025Updated last year
- deep learning toolkit (written on top of tensorflow) to streamline computational biology analysis☆22Feb 10, 2023Updated 3 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor☆54Aug 13, 2024Updated 2 years ago
- Software for comparing contact maps from HiC, CaptureC and other 3D genome data.☆26May 21, 2018Updated 8 years ago
- TF MOtif Discovery from Importance SCOres☆198Oct 16, 2026Updated 2 weeks ago
- Python implementation of Varshamov-Tenengolts codes for correction of single insertion/deletion errors☆13Aug 13, 2020Updated 6 years ago
- How many distinct k-mers are there in a sequence?☆11Oct 26, 2026Updated last week
- A toolkit to learn how to model and interpret regulatory sequence data using deep learning.☆264Aug 1, 2023Updated 3 years ago
- Ledidi turns any machine learning model into a biological sequence editor, allowing you to design sequences with desired properties.☆119Sep 16, 2026Updated last month
- Process Illumina instrument data into SAM/BAM/CRAM files.☆10Jul 6, 2026Updated 3 months ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Jun 4, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A multi-task neural network for predicting perturbation responses to Alternative Polyadenylation usage levels☆11May 18, 2023Updated 3 years ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆41Mar 27, 2025Updated last year
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆17Sep 24, 2020Updated 6 years ago
- ☆25Feb 18, 2021Updated 5 years ago
- ☆11Oct 6, 2017Updated 9 years ago
- Simple and efficient access to genomic data for deep learning models.☆43Jan 9, 2020Updated 6 years ago
- An Efficient DNA Clustering algorithm based on Tree Structure.☆19Mar 28, 2023Updated 3 years ago
- "Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy☆34Jan 7, 2020Updated 6 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆77Apr 28, 2023Updated 3 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- A dataset of real DNA traces for benchmarking trace reconstruction algorithms☆24Nov 18, 2024Updated last year
- ☆17Oct 22, 2026Updated last week
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Jun 9, 2021Updated 5 years ago
- Getting started guide to using GPUs for nCoV2019 research☆14Apr 24, 2020Updated 6 years ago
- Sequence data label generation and ingestion into deep learning models☆12Nov 17, 2021Updated 4 years ago
- Dynamic sequence track for HiGlass☆12May 3, 2022Updated 4 years ago
- Liftover VCF files☆19Dec 10, 2016Updated 9 years ago
- Yet Another Motif Discovery Algorithm☆53Jan 10, 2019Updated 7 years ago
- Program designed for DNA storage using Yin-Yang transcoding algorithm☆27May 6, 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.
- A lightweight reimplementation of some of the algorithms in the MEME suite in Python.☆39Sep 29, 2026Updated last month
- Downloader for ENCODE☆32Oct 5, 2020Updated 6 years ago
- Guess till correct: Gungnir codec enabling high error-tolerance and low-redundancy DNA storage through substantial computing power☆13Mar 2, 2026Updated 8 months ago
- a framework for training sequence-level deep learning networks☆400Dec 16, 2024Updated last year
- This repository hosts a minimal version of a Python API for BPNet.☆61Oct 19, 2026Updated last week
- deep learning-inspired explainable sequence model for transcription initiation☆109Mar 3, 2025Updated last year
- Useful functions for manipulating Multiplex Assay of Variant Effect datasets.☆11Feb 6, 2025Updated last year