Structural variant caller
☆55Dec 8, 2021Updated 4 years ago
Alternatives and similar repositories for smrtsv2
Users that are interested in smrtsv2 are comparing it to the libraries listed below
Sorting:
- pbsv - PacBio structural variant (SV) calling and analysis tools☆163Feb 26, 2025Updated last year
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Jasmine: SV Merging Across Samples☆241Dec 20, 2024Updated last year
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆31Aug 18, 2025Updated 6 months ago
- Phased assembly variant caller☆134Dec 4, 2024Updated last year
- VCF files of SVs using long-read sequencing (LRS).☆22Dec 17, 2021Updated 4 years ago
- Identification of segmental duplications in the genome☆27Mar 1, 2022Updated 4 years ago
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated last week
- ☆84Mar 3, 2025Updated last year
- add true-negative SVs from a population callset to a truth-set.☆15Jun 17, 2022Updated 3 years ago
- Calculates the probability of a haplotype given a population reference panel☆12Dec 9, 2024Updated last year
- Detect key Units in mosaic Tandem Repeats from representative reads from the same locus☆11Aug 2, 2023Updated 2 years ago
- Structural Variant Identification Method using Genome Assemblies☆138Sep 16, 2022Updated 3 years ago
- Toolset for SV simulation, comparison and filtering☆411Dec 1, 2023Updated 2 years ago
- SMRT-SV: Structural variant and indel caller for PacBio reads☆28Feb 21, 2019Updated 7 years ago
- SV genotyping with long reads☆40Jul 3, 2023Updated 2 years ago
- Scripts to reproduce TrioBinning manuscript☆17Mar 31, 2020Updated 5 years ago
- Combine structural variation outputs from long sequencing reads into a superior call set☆18Aug 6, 2025Updated 6 months ago
- Evaluate variant calls and its combination with k-mer multiplicity☆67Dec 2, 2022Updated 3 years ago
- Detecting genome structural variants with deep learning in single molecule sequencing☆115Apr 9, 2025Updated 10 months ago
- Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.☆32Sep 19, 2022Updated 3 years ago
- Characterization of Structural Variation in Chinese samples☆18Dec 22, 2021Updated 4 years ago
- 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
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated last month
- Yet another k-mer analyzer☆160Dec 30, 2025Updated 2 months ago
- Structural variation caller using third generation sequencing☆636Dec 18, 2025Updated 2 months ago
- Segmental Duplication Assembler (SDA).☆43May 7, 2023Updated 2 years ago
- Structural variant caller for low-depth long-read sequencing data☆47Feb 5, 2026Updated 3 weeks ago
- Toolkit for calling structural variants using short or long reads☆115Feb 11, 2026Updated 2 weeks ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆51Feb 3, 2021Updated 5 years ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- Long read based human genomic structural variation detection with cuteSV☆277Sep 30, 2025Updated 5 months ago
- Functions to compare a SV call sets against a truth set.☆30Jun 18, 2025Updated 8 months ago
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Oct 5, 2021Updated 4 years ago
- Mark duplicate reads from PacBio sequencing of an amplified library☆12Feb 26, 2025Updated last year
- Code for phasing SVs with SNPs☆54Mar 27, 2020Updated 5 years ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆115Oct 25, 2021Updated 4 years ago
- ☆51Aug 27, 2019Updated 6 years ago