Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
☆115Oct 25, 2021Updated 4 years ago
Alternatives and similar repositories for pipeline-structural-variation
Users that are interested in pipeline-structural-variation are comparing it to the libraries listed below
Sorting:
- Structural variant caller for low-depth long-read sequencing data☆47Feb 5, 2026Updated 3 weeks ago
- Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.☆32Sep 19, 2022Updated 3 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…☆204May 4, 2023Updated 2 years ago
- Structural variation caller using third generation sequencing☆636Dec 18, 2025Updated 2 months ago
- ☆84Mar 3, 2025Updated last year
- Long read based human genomic structural variation detection with cuteSV☆277Sep 30, 2025Updated 5 months ago
- SV caller for nanopore data☆92Jun 7, 2020Updated 5 years ago
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated last month
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated last week
- Structural variant caller☆55Dec 8, 2021Updated 4 years ago
- A snakemake pipeline for SV analysis from nanopore genome sequencing☆52Feb 24, 2020Updated 6 years ago
- PEPPER-Margin-DeepVariant☆257Jan 12, 2024Updated 2 years ago
- ☆51Aug 27, 2019Updated 6 years ago
- Plotting tools for nanopore methylation data☆95Jul 28, 2025Updated 7 months ago
- Snakemake pipelines for nanopore sequencing data archiving and processing☆91Feb 2, 2022Updated 4 years ago
- Kmer based genotyper for short reads.☆23Oct 19, 2021Updated 4 years ago
- Toolkit for genome-wide analysis of tandem repeats☆59Feb 19, 2026Updated last week
- Sequence correction provided by ONT Research☆500Dec 8, 2025Updated 2 months ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- Structural variant (SV) analysis tools☆40Jul 1, 2024Updated last year
- Plotting scripts for long read sequencing data☆534Dec 4, 2025Updated 3 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
- Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.☆32Jul 2, 2020Updated 5 years ago
- Flip-flop basecaller for Oxford Nanopore reads☆99Jan 13, 2022Updated 4 years ago
- Combine structural variation outputs from long sequencing reads into a superior call set☆18Aug 6, 2025Updated 6 months ago
- ☆16Jan 10, 2022Updated 4 years ago
- Code for the Brassica oleracea/rapa/napus genomic comparison☆16Apr 29, 2021Updated 4 years ago
- Plot structural variant signals from many BAMs and CRAMs☆560Jul 13, 2024Updated last year
- Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling☆105Sep 1, 2022Updated 3 years ago
- Structural Variants Pipeline for Long Reads☆44Jul 17, 2018Updated 7 years ago
- Nanopore raw signal repeat detection pipeline☆45Mar 17, 2023Updated 2 years ago
- Variant calling tool for long-read sequencing data☆117Mar 19, 2025Updated 11 months ago
- Structural Variant Identification Method using Long Reads☆181Jun 29, 2021Updated 4 years ago
- Oxford Nanopore HDF/Fast5 to CRAM conversion tool☆22Dec 30, 2019Updated 6 years ago
- Toolset for SV simulation, comparison and filtering☆411Dec 1, 2023Updated 2 years ago
- Detect novel (and reference) STR expansions from short-read data☆70Dec 6, 2025Updated 2 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- An R package to detect, classify, and visualize genome rearrangements☆15Aug 4, 2020Updated 5 years ago
- A genome browser designed for complex structural variants and long reads.☆297Jun 6, 2025Updated 8 months ago