SquiggleKit: A toolkit for manipulating nanopore signal data
☆128Feb 16, 2024Updated 2 years ago
Alternatives and similar repositories for SquiggleKit
Users that are interested in SquiggleKit are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Predictive kmer models for development use☆63Jun 6, 2023Updated 2 years ago
- ☆49Nov 7, 2024Updated last year
- Research release basecalling models and configurations☆117May 21, 2025Updated 10 months ago
- Training models for basecalling Oxford Nanopore reads☆115Jan 13, 2022Updated 4 years ago
- A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing effici…☆13Feb 13, 2019Updated 7 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)☆118Mar 2, 2026Updated last month
- Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…☆204May 4, 2023Updated 2 years ago
- Flip-flop basecaller for Oxford Nanopore reads☆99Jan 13, 2022Updated 4 years ago
- CLI tool for flexible and fast adaptive sampling on ONT sequencers☆195Feb 25, 2026Updated last month
- a signal-level demultiplexer for Oxford Nanopore reads☆126Jan 18, 2021Updated 5 years ago
- Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.☆105Jan 28, 2026Updated 2 months ago
- Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.☆234May 4, 2023Updated 2 years ago
- Signal-level algorithms for MinION data☆595Aug 5, 2023Updated 2 years ago
- Signal based nanopore RNA demultiplexing with convolutional neural networks☆39Aug 2, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)☆163Mar 19, 2026Updated 3 weeks ago
- Snakemake pipelines for nanopore sequencing data archiving and processing☆91Feb 2, 2022Updated 4 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Jun 27, 2022Updated 3 years ago
- A PyTorch Basecaller for Oxford Nanopore Reads☆430Feb 20, 2026Updated last month
- Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group☆94Jan 13, 2022Updated 4 years ago
- Methylation/modified base calling separated from basecalling.☆185Sep 17, 2024Updated last year
- Data and analysis for NA12878 genome on nanopore☆405Nov 22, 2022Updated 3 years ago
- Detecting methylation using signal-level features from Nanopore sequencing reads☆118Jun 4, 2023Updated 2 years ago
- Sequence correction provided by ONT Research☆503Dec 8, 2025Updated 4 months 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.
- Nanopore sequence read simulator☆296Mar 12, 2026Updated 3 weeks ago
- A streaming method for mapping nanopore raw signals☆32Nov 7, 2021Updated 4 years ago
- Identification of differential RNA modifications from nanopore direct RNA sequencing☆163Nov 7, 2024Updated last year
- RNA modifications detection from Nanopore dRNA-Seq data☆88Updated this week
- A fully convolutional architecture for basecalling nanopore RNA sequencing data☆11Sep 26, 2024Updated last year
- A comparison of different Oxford Nanopore basecallers☆316Aug 5, 2019Updated 6 years ago
- Oxford Nanopore Technologies fast5 API software☆154Feb 27, 2024Updated 2 years ago
- A basecaller for Oxford Nanopore Technologies' sequencers☆121Jul 6, 2023Updated 2 years ago
- A versatile sequenced read processor for nanopore direct RNA sequencing☆82May 24, 2020Updated 5 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Long read aligner☆114May 26, 2023Updated 2 years ago
- Read Until client library for Nanopore Sequencing☆108Sep 25, 2024Updated last year
- A python program to call methylation (m6A in DNA) from nanopore signal data☆47Jun 24, 2021Updated 4 years ago
- The first deep learning based Nanopore simulator which can simulate the process of Nanopore sequencing.☆123Oct 20, 2020Updated 5 years ago
- A simplified version of Dorado built on top of S/BLOW5 format.☆35Updated this week
- Full-Length Alternative Isoform analysis of RNA☆250Mar 30, 2026Updated last week
- HMM-HDP models for MinION signal alignments☆46Apr 10, 2017Updated 9 years ago