Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.
☆88Apr 2, 2026Updated 2 weeks ago
Alternatives and similar repositories for centrifuger
Users that are interested in centrifuger are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆301Feb 3, 2026Updated 2 months ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆50Mar 13, 2025Updated last year
- Robust individual and aggregate checksums for nucleotide sequences☆17Mar 3, 2026Updated last month
- sunburst plots for taxonomy - working to update Krona☆44Sep 22, 2025Updated 6 months ago
- Genome size estimation from long read overlaps☆82Updated this week
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆172Apr 6, 2026Updated last week
- ☆10Jun 9, 2025Updated 10 months ago
- ☆15Jan 28, 2026Updated 2 months ago
- Chimera: A Versatile Metagenomic Classification Tool☆21Feb 1, 2026Updated 2 months ago
- Basecalling configuration prediction through FASTQ files☆33Mar 17, 2026Updated last month
- Fast and space-efficient taxonomic classification of long reads☆45Aug 25, 2025Updated 7 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆66Apr 10, 2025Updated last year
- Kun-peng: an ultra-fast, low-memory footprint and accurate taxonomy classifier for all☆137Mar 19, 2026Updated 3 weeks ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆24Nov 20, 2025Updated 4 months ago
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- A new high-resolution long-read metagenome assembler for even noisy reads☆145Apr 5, 2026Updated last week
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- LRBinner is a long-read binning tool published in WABI 2021 proceedings and AMB.☆32May 30, 2023Updated 2 years ago
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆126Mar 20, 2026Updated 3 weeks ago
- Compacted and colored de Bruijn graph construction and querying☆95Mar 6, 2026Updated last month
- LexicMap: efficient sequence alignment against millions of prokaryotic genomes☆217Updated this week
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆50Mar 26, 2026Updated 3 weeks ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆248Oct 12, 2025Updated 6 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆53Mar 13, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Precise host read removal☆119Mar 28, 2026Updated 2 weeks ago
- Approximate nearest neighbour search for microbial genomes based on hash metric☆62Mar 7, 2026Updated last month
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆185Apr 10, 2026Updated last week
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆212Mar 3, 2026Updated last month
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆105Updated this week
- Extremely fast and accurate Nanopore demultiplexing☆88Apr 9, 2026Updated last week
- Repository for codes, analyses and visualizations for the CAMI II challenges☆14Sep 4, 2023Updated 2 years ago
- Remove human reads from a sequencing run☆48Updated this week
- Creates a simple OTU table from Kraken2 report.☆13Oct 15, 2024Updated last year
- 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.
- Graph-based assembly phasing☆93Nov 25, 2025Updated 4 months ago
- A SIMD-accelerated library to compute random minimizers☆39Apr 6, 2026Updated last week
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆154Oct 2, 2025Updated 6 months ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets☆25Feb 26, 2026Updated last month
- ☆17Oct 7, 2024Updated last year
- BWT construction and search☆127Jan 14, 2026Updated 3 months ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year