Paired reads mapping on de Bruijn graph
☆13Jan 15, 2019Updated 7 years ago
Alternatives and similar repositories for BGREAT2
Users that are interested in BGREAT2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- compacted de Bruijn graph construction in low memory☆100Nov 4, 2025Updated 4 months ago
- Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆11Jul 16, 2017Updated 8 years ago
- The Dagstuhl Format for Assembly☆13Oct 16, 2017Updated 8 years ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆17Jun 4, 2019Updated 6 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Nov 27, 2025Updated 3 months ago
- ☆19Nov 21, 2024Updated last year
- Tool (experimental) to compute layout from overlaps with spectral algorithm☆11Nov 28, 2017Updated 8 years ago
- Parametric sweep of simulated microbial communities and metagenomic sequencing.☆11Jul 15, 2022Updated 3 years ago
- de Bruijn Graph-based read aligner☆35Sep 3, 2018Updated 7 years ago
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 7 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
- Automated optimisation of de-novo transcriptome assembly☆25Nov 11, 2015Updated 10 years ago
- Multi-threaded Distributed Memory Overlap-Layout-Consensus (OLC) Metagenome Assembler☆24Apr 10, 2019Updated 6 years ago
- SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.☆12Sep 19, 2019Updated 6 years ago
- Ruby library for handling GFA files☆17Jul 10, 2025Updated 8 months ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆30Mar 31, 2015Updated 10 years ago
- Scaffolding genomes using synthetic long read clouds☆20Oct 11, 2016Updated 9 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Nov 13, 2025Updated 4 months ago
- Factorize metagenotypes to infer strains and their abundances☆12Sep 29, 2024Updated last year
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Population genetics analysis on VG☆17Apr 22, 2021Updated 4 years ago
- High-level API for storing and querying sequence variant data☆20May 24, 2019Updated 6 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆55May 17, 2022Updated 3 years ago
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆53Mar 18, 2026Updated last week
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Oct 20, 2023Updated 2 years ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆21Dec 9, 2025Updated 3 months ago
- Importing vg json graphs to Python data structures.☆12Nov 11, 2020Updated 5 years ago
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- ☆16Jun 22, 2023Updated 2 years ago
- Library for the Handle Graph abstraction☆24Jan 15, 2026Updated 2 months ago
- De novo genome assembler.☆11Jul 30, 2018Updated 7 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated last year
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- MiGA: Microbial Genomes Atlas☆32Updated this week
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- An algorithm for recovering haplotypes from metagenomes☆30Jun 29, 2021Updated 4 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆86Updated this week
- ☆62Sep 15, 2025Updated 6 months ago
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆118Jan 29, 2026Updated last month