LOGAN: High-Performance Multi-GPU X-Drop Long-Read Alignment.
☆30Sep 23, 2022Updated 3 years ago
Alternatives and similar repositories for LOGAN
Users that are interested in LOGAN are comparing it to the libraries listed below
Sorting:
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Aug 8, 2018Updated 7 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆52May 16, 2022Updated 3 years ago
- Long Approximate Matches-based Split Aligner☆13Apr 6, 2017Updated 8 years ago
- C implementation of the Landau-Vishkin algorithm☆35Apr 8, 2022Updated 3 years ago
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- ☆11Dec 9, 2022Updated 3 years ago
- Pan-genome Seed Index☆20Mar 12, 2025Updated 11 months ago
- For bluntifying overlapped GFAs☆13Jul 26, 2024Updated last year
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Jun 23, 2023Updated 2 years ago
- Global alignment and alignment extension☆142Jun 27, 2023Updated 2 years ago
- PCA in rust☆16Jul 30, 2023Updated 2 years ago
- High Performance Sorting Based Distributed memory K-mer counter☆15Dec 8, 2025Updated 2 months ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- SARS-CoV-2 Deep Sequencing☆14Apr 22, 2020Updated 5 years ago
- ☆13Jan 23, 2020Updated 6 years ago
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- ☆24Aug 25, 2025Updated 6 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- ECML16: GaKCo: a Fast Gapped k-mer string Kernel using Counting☆14Aug 28, 2019Updated 6 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- ☆13Jan 20, 2016Updated 10 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data☆16Apr 2, 2024Updated last year
- A cheatsheet for most common Stringology tasks☆14Apr 14, 2021Updated 4 years ago
- Toolkit for extracting SVs from long sequences and benchmarking variant callers☆13Jan 10, 2017Updated 9 years ago
- GBWT-based handle graph☆31Feb 11, 2026Updated 2 weeks ago
- Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly☆16Jun 11, 2024Updated last year
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 3 years ago
- a wee tool for random access into BGZF files.☆86May 10, 2018Updated 7 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Benchmarking pairwise aligners☆37Feb 8, 2025Updated last year
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- Ximmer is a system for CNV calling on exome and targeted genomic sequencing☆19Jan 28, 2026Updated last month
- Source code for the Shifted Hamming Distance (SHD) filtering mechanism for sequence alignment. Described in the Bioinformatics journal pa…☆36Mar 29, 2020Updated 5 years ago
- A fast and memory efficient hashmap using sorting to resolve collisions☆43Nov 16, 2020Updated 5 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆36Dec 9, 2024Updated last year