medvedevgroup / TwoPaCo
A fast constructor of the compressed de Bruijn graph from many genomes
☆40Updated 2 weeks ago
Alternatives and similar repositories for TwoPaCo:
Users that are interested in TwoPaCo are comparing it to the libraries listed below
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Efficient, parallel compression for terabyte-scale data☆39Updated 3 weeks ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 6 months ago
- ☆28Updated last year
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated this week
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- Lift-over alignments from variant-aware references☆34Updated last year
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- Population-scale detection of novel sequence insertions☆27Updated 2 years ago
- ☆25Updated 3 years ago
- de Bruijn Graph-based read aligner☆33Updated 6 years ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆34Updated last year
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 11 months ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 8 months ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 8 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 2 years ago
- A k-mer search engine for all Sequence Read Archive public accessions☆20Updated 3 months ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆16Updated 5 years ago
- The Modular Aligner and The Modular SV Caller☆46Updated last year
- Optimized sequence graph implementations for graph genomics☆34Updated last month
- Benchmarking pairwise aligners☆36Updated last week
- Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.☆22Updated 6 years ago
- C implementation of the Landau-Vishkin algorithm☆35Updated 2 years ago
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- Small general purpose library for C and Python with focus on bioinformatics.☆29Updated 2 years ago
- Read alignment with a multi-genome reference☆22Updated 5 years ago