medvedevgroup / TwoPaCo
A fast constructor of the compressed de Bruijn graph from many genomes
☆40Updated 2 months ago
Alternatives and similar repositories for TwoPaCo:
Users that are interested in TwoPaCo are comparing it to the libraries listed below
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- ☆28Updated 2 weeks ago
- HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs☆17Updated 8 years ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated last year
- ☆17Updated last year
- Lift-over alignments from variant-aware references☆34Updated 2 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 8 months ago
- Population-scale detection of novel sequence insertions☆27Updated 2 years ago
- Scripts for implementing read until and other examples.☆31Updated 5 years ago
- ☆25Updated 3 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated last week
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- ☆14Updated 9 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 10 months ago
- StriDe Assembler☆25Updated 7 years ago
- A k-mer search engine for all Sequence Read Archive public accessions☆29Updated 5 months ago
- High-level API for storing and querying sequence variant data☆20Updated 5 years ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆14Updated 6 months ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆37Updated last year
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆16Updated 5 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- Practical Dynamic de Bruijn Graphs☆18Updated 4 years ago
- Scaffolding genomes using synthetic long read clouds☆20Updated 8 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 2 years ago
- Parallel Sequence to Graph Alignment☆36Updated 2 years ago