Nanopore sequence read simulator
☆288Feb 3, 2026Updated 3 weeks ago
Alternatives and similar repositories for NanoSim
Users that are interested in NanoSim are comparing it to the libraries listed below
Sorting:
- The first deep learning based Nanopore simulator which can simulate the process of Nanopore sequencing.☆123Oct 20, 2020Updated 5 years ago
- a long read simulator that can imitate many types of read problems☆267Jul 22, 2024Updated last year
- Long read / genome alignment software☆310Dec 16, 2025Updated 2 months ago
- Plotting scripts for long read sequencing data☆532Dec 4, 2025Updated 2 months ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆274Oct 13, 2022Updated 3 years ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- SquiggleKit: A toolkit for manipulating nanopore signal data☆128Feb 16, 2024Updated 2 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…☆296May 9, 2024Updated last year
- Data and analysis for NA12878 genome on nanopore☆403Nov 22, 2022Updated 3 years ago
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆284Oct 18, 2024Updated last year
- Read-based phasing of genomic variants, also called haplotype assembly☆404Dec 31, 2025Updated 2 months ago
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- Structural variation caller using third generation sequencing☆636Dec 18, 2025Updated 2 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆236Dec 29, 2023Updated 2 years ago
- A PyTorch Basecaller for Oxford Nanopore Reads☆428Feb 20, 2026Updated last week
- A genomic k-mer counter (and sequence utility) with nice features.☆160Jul 4, 2025Updated 7 months ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆85Jul 4, 2022Updated 3 years ago
- Sequence correction provided by ONT Research☆500Dec 8, 2025Updated 2 months ago
- adapter trimmer for Oxford Nanopore reads☆382May 8, 2024Updated last year
- Signal-level algorithms for MinION data☆594Aug 5, 2023Updated 2 years ago
- PEPPER-Margin-DeepVariant☆257Jan 12, 2024Updated 2 years ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆352Jul 19, 2025Updated 7 months ago
- Analysis components from Oxford Nanopore Research☆96Sep 4, 2024Updated last year
- a short-read polishing tool for long-read assemblies☆207Sep 19, 2025Updated 5 months ago
- CAMISIM: Simulating metagenomes and microbial communities☆222Feb 18, 2026Updated last week
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆337Updated this week
- De novo assembler for single molecule sequencing reads using repeat graphs☆905May 2, 2025Updated 9 months ago
- quality filtering tool for long reads☆394Sep 17, 2025Updated 5 months ago
- Fast genome analysis from unassembled short reads☆312Apr 8, 2024Updated last year
- Fast and accurately polish the genome generated by long reads.☆240Jan 9, 2025Updated last year
- 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…☆307Mar 18, 2024Updated last year
- CLI tool for flexible and fast adaptive sampling on ONT sequencers☆194Apr 28, 2025Updated 10 months ago
- Long read based human genomic structural variation detection with cuteSV☆278Sep 30, 2025Updated 5 months ago
- Comparison of multiple long read datasets☆158Dec 2, 2025Updated 2 months ago
- Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…☆203May 4, 2023Updated 2 years ago
- Nanopore basecalling and consensus decoding☆46Jul 22, 2022Updated 3 years ago
- k-mer based assembly evaluation☆338Jun 28, 2024Updated last year
- Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group☆93Jan 13, 2022Updated 4 years ago
- Variant calling tool for long-read sequencing data☆117Mar 19, 2025Updated 11 months ago