mkirsche / sapling
SAPLING: Suffix Array Piecewise Linear INdex for Genomics
☆25Updated 4 years ago
Related projects ⓘ
Alternatives and complementary repositories for sapling
- Parallel Sequence to Graph Alignment☆35Updated last year
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 5 months ago
- ☆16Updated 3 years ago
- URMAP ultra-fast read mapper☆39Updated 4 years ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆43Updated this week
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- ☆28Updated last year
- Tumour-only somatic mutation calling using long reads☆24Updated last week
- GFA insert into GenomicSQLite☆48Updated 3 years ago
- Benchmarking pairwise aligners☆36Updated 7 months ago
- Snakemake pipeline for benchmarking read mappers☆16Updated 10 months ago
- MONI: A Pangenomic Index for Finding MEMs☆37Updated last month
- Population-scale detection of novel sequence insertions☆27Updated 2 years ago
- A long-read analysis toolbox for cancer and population genomics☆20Updated 7 months ago
- ☆17Updated last year
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆22Updated this week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- de Bruijn Graph-based read aligner☆33Updated 6 years ago
- ☆25Updated 3 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- genome variation graphs constructed from HLA GRCh38 ALTs☆22Updated 2 years ago
- ☆16Updated 2 years ago
- A long read simulator based on badread idea☆20Updated 2 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.☆51Updated 2 years ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆13Updated last year
- Rust wrapper for the next generation (still currently in C++)☆20Updated last week
- recompute GFA link overlaps☆25Updated 2 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆50Updated last month