medvedevgroup / TwoPaCo
A fast constructor of the compressed de Bruijn graph from many genomes
☆40Updated 2 years 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
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆52Updated 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
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 10 months ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 3 years ago
- ☆17Updated last year
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆46Updated last week
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- Lift-over alignments from variant-aware references☆34Updated last year
- efficient alignment of strings to partially ordered string graphs☆33Updated 2 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 6 months ago
- C implementation of the Landau-Vishkin algorithm☆35Updated 2 years ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆63Updated 7 months ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Population-scale detection of novel sequence insertions☆27Updated 2 years ago
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆53Updated last month
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- ☆28Updated last year
- ☆25Updated 3 years ago
- Practical Dynamic de Bruijn Graphs☆18Updated 4 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- ☆14Updated 9 years ago
- The Modular Aligner and The Modular SV Caller☆46Updated last year
- Optimized sequence graph implementations for graph genomics☆34Updated last month
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 8 months ago
- Rapid competitive read demulitplexer. Made with tries.☆23Updated last year
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 4 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 3 years ago
- Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆10Updated 7 years ago