Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
☆26Apr 29, 2024Updated last year
Alternatives and similar repositories for PopIns2
Users that are interested in PopIns2 are comparing it to the libraries listed below
Sorting:
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 4 years ago
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- A software for discovery, genotyping and characterization of structural variants☆22Sep 11, 2024Updated last year
- Recommended Graphtyper pipelines☆15Feb 22, 2021Updated 5 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated last year
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 2 years ago
- Population-wide Deletion Calling☆35Apr 16, 2025Updated 10 months ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Jun 23, 2023Updated 2 years ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆47Feb 23, 2021Updated 5 years ago
- Kmer based genotyper for short reads.☆23Oct 19, 2021Updated 4 years ago
- A method for variant graph genotyping based on exact alignment of k-mers☆87Apr 1, 2019Updated 6 years ago
- Fast and accurate coordinate conversion between assemblies☆118Oct 9, 2025Updated 4 months ago
- ☆51Aug 27, 2019Updated 6 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆55May 17, 2022Updated 3 years ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated 11 months ago
- Structural variant VCF annotation, duplicate removal and comparison☆36Oct 14, 2025Updated 4 months ago
- Roslin is a reproducible and reusable workflow for Cancer Genomic Sequencing Analysis☆16Nov 13, 2024Updated last year
- ☆13Jan 23, 2020Updated 6 years ago
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆54Mar 7, 2025Updated 11 months ago
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Population-scale genotyping using pangenome graphs☆196Jan 9, 2025Updated last year
- Pangenome graphs (review article on graph-based pangenomic methods)☆72Apr 15, 2020Updated 5 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆49Sep 2, 2025Updated 6 months ago
- DNN-based small variant caller☆12May 2, 2022Updated 3 years ago
- Scaffolding genomes using synthetic long read clouds☆20Oct 11, 2016Updated 9 years ago
- Graph based multi genome aligner☆49Sep 17, 2021Updated 4 years ago
- ☆51Jun 25, 2024Updated last year
- NovoGraph: building whole genome graphs from long-read-based de novo assemblies☆46Feb 23, 2021Updated 5 years ago
- An insertion caller for Illumina paired-end WGS data.☆24Aug 22, 2025Updated 6 months ago
- ☆16Jan 10, 2022Updated 4 years ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Jan 31, 2024Updated 2 years ago
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated last week
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- ☆26Aug 10, 2021Updated 4 years ago
- Evaluate variant calls and its combination with k-mer multiplicity☆67Dec 2, 2022Updated 3 years ago
- SRF: Satellite Repeat Finder☆103Jan 8, 2024Updated 2 years ago