arun-sub / bwa-mem2
Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.
☆13Updated 3 years ago
Alternatives and similar repositories for bwa-mem2:
Users that are interested in bwa-mem2 are comparing it to the libraries listed below
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆48Updated 2 years ago
- Global alignment and alignment extension☆130Updated last year
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆46Updated 10 months ago
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆198Updated last week
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆67Updated 2 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 11 months ago
- Substring index for paths in a graph☆60Updated 2 months ago
- Estimating k-mer coverage histogram of genomics data☆76Updated last year
- compacted de Bruijn graph construction in low memory☆100Updated 3 months ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 10 months ago
- An efficient index for the colored, compacted, de Bruijn graph☆108Updated 3 months ago
- Self-contained, multi-threaded fasta/q parser☆43Updated 3 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 2 years ago
- Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository☆33Updated 2 months ago
- A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…☆66Updated 4 years ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆63Updated 7 months ago
- Efficient, parallel compression for terabyte-scale data☆36Updated this week
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- Assemblies from HPP Year 1 production☆70Updated last year
- linearize and simplify variation graphs using blocked partial order alignment☆57Updated 2 months ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 3 years ago
- A repository for generating strobemers and evalaution☆77Updated 9 months ago
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆42Updated last year
- Adaptive semi-global banded alignment on string graphs☆65Updated 6 years ago
- alignment to variation graph inducer☆144Updated 3 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆52Updated 2 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆88Updated 3 years ago
- ☆263Updated last month
- Histosketching Using Little Kmers☆55Updated last year
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago