Mapping sequencing data to De Bruijn graphs, fast
☆34Jun 5, 2026Updated last week
Alternatives and similar repositories for piscem
Users that are interested in piscem are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- ☆15Nov 30, 2023Updated 2 years ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29May 31, 2026Updated 2 weeks ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Compacted and colored de Bruijn graph construction and querying☆97Updated this week
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆41Mar 9, 2026Updated 3 months ago
- Cache-friendly, Parallel, and Samplesort-based Constructor for Suffix Arrays and LCP Arrays☆18Jun 23, 2025Updated 11 months ago
- Parallel Construction of Suffix Arrays in Rust☆26May 2, 2025Updated last year
- ☆21Dec 26, 2025Updated 5 months ago
- ☆15May 22, 2026Updated 3 weeks ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆47May 13, 2026Updated last month
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc…☆207Updated this week
- Tools for working FASTQ files from sequencers (R1/R2/I1/I2)☆12Dec 6, 2024Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Single-cell analysis methods in Rust☆35Nov 4, 2025Updated 7 months ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated 10 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆55Mar 13, 2025Updated last year
- Differential k-mer analysis☆41Jan 29, 2024Updated 2 years ago
- An extensible and performant aligner and read mapper☆75Jun 7, 2026Updated last week
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆44Nov 18, 2023Updated 2 years ago
- ☆56Aug 11, 2022Updated 3 years ago
- A Rust library for building modular, fast and compact indexes over genomic data☆12Nov 22, 2023Updated 2 years ago
- ☆17Apr 6, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Iterate over minimizers of a DNA sequence☆33Jul 12, 2024Updated last year
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- Bidirectional WFA (Paper)☆49May 20, 2024Updated 2 years ago
- Rust crate with bindings and interface to the SPOA library for generating consensus sequences.☆13Apr 16, 2019Updated 7 years ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆93Feb 26, 2026Updated 3 months ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆25Nov 20, 2025Updated 6 months ago
- Hierarchical binned indexed data store for on-disk genomic data.☆13Jan 18, 2025Updated last year
- ☆17Jan 6, 2025Updated last year
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆102May 6, 2026Updated last month
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆28Sep 28, 2024Updated last year
- Uses cDBG to count unitigs in bacterial populations☆17Feb 15, 2023Updated 3 years ago
- Benchmarking pairwise aligners☆37Feb 8, 2025Updated last year
- ☆15Jan 28, 2026Updated 4 months ago
- lace up GFA files using panSN path name sub-ranges to coordinate the lacing☆14Jul 30, 2025Updated 10 months ago
- Long read aligner for cyclic and acyclic pangenome graphs☆41Dec 20, 2023Updated 2 years ago
- A small, auxiliary index to massively improve parallel fastq parsing☆32Mar 6, 2026Updated 3 months ago