arun-sub / bwa-mem2Links
Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.
☆13Updated 4 years ago
Alternatives and similar repositories for bwa-mem2
Users that are interested in bwa-mem2 are comparing it to the libraries listed below
Sorting:
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆51Updated 3 years ago
- Global alignment and alignment extension☆139Updated 2 years ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆18Updated 6 years ago
- compacted de Bruijn graph construction in low memory☆100Updated 3 weeks ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆54Updated last year
- AStarix: Fast and Optimal Sequence-to-Graph Aligner☆74Updated 3 years ago
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆226Updated this week
- Adaptive semi-global banded alignment on string graphs☆67Updated 7 years ago
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆44Updated 2 years ago
- This is an updated mirror of the original PacBio Read Simulator☆38Updated 7 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆55Updated last year
- SIMD partial order alignment tool/library☆170Updated 2 months ago
- BWT-based index for graphs☆73Updated 8 months ago
- Substring index for paths in a graph☆60Updated last week
- An efficient index for the colored, compacted, de Bruijn graph☆110Updated last year
- Efficient, parallel compression for terabyte-scale data☆52Updated 2 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆68Updated 3 years ago
- GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment☆36Updated 6 months ago
- Parallel Sequence to Graph Alignment☆36Updated 3 years ago
- HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs☆18Updated 9 years ago
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 5 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆219Updated last month
- A repository for generating strobemers and evalaution☆79Updated last year
- Pan-Genomic Matching Statistics☆54Updated last year
- online notebooks for a review of genome sketching☆60Updated 6 years ago
- An experimental tool to find approximate max-cuts in a large graph☆10Updated 4 years ago
- A fuzzy Bruijn graph approach to long noisy reads assembly☆39Updated 8 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 9 months ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆85Updated 3 months ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆68Updated last year