The first deep learning based Nanopore simulator which can simulate the process of Nanopore sequencing.
☆122Oct 20, 2020Updated 5 years ago
Alternatives and similar repositories for DeepSimulator
Users that are interested in DeepSimulator are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Nanopore sequence read simulator☆311Mar 12, 2026Updated 5 months ago
- End-to-end simulation of nanopore sequencing signals with feed-forward transformers☆17Jun 4, 2026Updated 2 months ago
- NanoSim-H: a simulator of Oxford Nanopore reads; a fork of NanoSim.☆18Sep 7, 2022Updated 3 years ago
- a simulator of long read sequencing in pacbio and oxford nanopore☆15Oct 13, 2016Updated 9 years ago
- a tool for simulating nanopore raw signal data☆81Mar 4, 2026Updated 5 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.
- SquiggleKit: A toolkit for manipulating nanopore signal data☆129Feb 16, 2024Updated 2 years ago
- Nanopore SimulatION is a tool for simulating an Oxfornd Nanopore Technologies MinION device for bioinformatic development.☆19Nov 30, 2017Updated 8 years ago
- Training models for basecalling Oxford Nanopore reads☆116Jan 13, 2022Updated 4 years ago
- Predictive kmer models for development use☆64Jun 6, 2023Updated 3 years ago
- PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores☆76Jul 22, 2023Updated 3 years ago
- Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group☆94Jan 13, 2022Updated 4 years ago
- Data for paper "Random Access in Large-Scale DNA Data Storage"☆12Jan 11, 2018Updated 8 years ago
- PEPPER-Margin-DeepVariant☆260Jan 12, 2024Updated 2 years ago
- Adaptive semi-global banded alignment on string graphs☆66May 4, 2018Updated 8 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- A basecaller for Oxford Nanopore Technologies' sequencers☆121Jul 6, 2023Updated 3 years ago
- 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
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- ☆23Jan 18, 2026Updated 7 months ago
- A PyTorch Basecaller for Oxford Nanopore Reads☆436Feb 20, 2026Updated 6 months ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆272Oct 13, 2022Updated 3 years ago
- CLI tool for flexible and fast adaptive sampling on ONT sequencers☆198Feb 25, 2026Updated 6 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆68Aug 30, 2022Updated 4 years ago
- a long read simulator that can imitate many types of read problems☆297Jul 24, 2026Updated last month
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…☆205May 4, 2023Updated 3 years ago
- DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets☆34Feb 25, 2021Updated 5 years ago
- Realtime base modification frequency tool☆13Sep 16, 2025Updated 11 months ago
- Read Until client library for Nanopore Sequencing☆108Sep 25, 2024Updated last year
- Nanopore raw signal repeat detection pipeline☆45Mar 17, 2023Updated 3 years ago
- Oxford Nanopore Technologies fast5 API software☆155Feb 27, 2024Updated 2 years ago
- Long read aligner☆115May 26, 2023Updated 3 years ago
- ☆11Mar 4, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆310Mar 18, 2024Updated 2 years ago
- Here we proposed two novel algorithms, the Direct Subsequence Dynamic Time Warping for nanopore raw signal search (DSDTWnano) and the con…☆10Jul 13, 2020Updated 6 years ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆387Jul 9, 2026Updated last month
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆53May 16, 2022Updated 4 years ago
- Sloika is Oxford Nanopore Technologies' software for training neural network models for base calling☆27Aug 31, 2022Updated 4 years ago
- Fast and scalable nanopore adaptive sampling☆37Jun 6, 2023Updated 3 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆302May 9, 2024Updated 2 years ago