a long read simulator that can imitate many types of read problems
☆267Jul 22, 2024Updated last year
Alternatives and similar repositories for Badread
Users that are interested in Badread are comparing it to the libraries listed below
Sorting:
- Nanopore sequence read simulator☆288Feb 3, 2026Updated 3 weeks ago
- a short-read polishing tool for long-read assemblies☆207Sep 19, 2025Updated 5 months ago
- quality filtering tool for long reads☆394Sep 17, 2025Updated 5 months ago
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆203Feb 16, 2026Updated last week
- A genomic k-mer counter (and sequence utility) with nice features.☆160Jul 4, 2025Updated 7 months ago
- Long read / genome alignment software☆310Dec 16, 2025Updated 2 months ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆170Mar 15, 2021Updated 4 years ago
- Comparison of multiple long read datasets☆158Dec 2, 2025Updated 2 months ago
- Genome size estimation from long read overlaps☆81Feb 19, 2026Updated last week
- A tool for generating consensus long-read assemblies for bacterial genomes☆217Updated this week
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆294Feb 3, 2026Updated 3 weeks ago
- Align proteins to genomes with splicing and frameshift☆395Jan 5, 2026Updated last month
- Tandem repeat expansion detection or genotyping from long-read alignments☆143Nov 24, 2025Updated 3 months ago
- Graph-based assembly phasing☆91Nov 25, 2025Updated 3 months ago
- Plotting scripts for long read sequencing data☆532Dec 4, 2025Updated 2 months ago
- Yet another k-mer analyzer☆160Dec 30, 2025Updated 2 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆122Updated this week
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆296May 9, 2024Updated last year
- A tool for generating consensus long-read assemblies for bacterial genomes☆340Sep 11, 2025Updated 5 months ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆352Jul 19, 2025Updated 7 months ago
- De novo genome assembler for long uncorrected reads☆229Nov 15, 2023Updated 2 years ago
- k-mer based assembly evaluation☆338Jun 28, 2024Updated last year
- Sequence correction provided by ONT Research☆500Dec 8, 2025Updated 2 months ago
- Aligns short reads using dynamic seed size with strobemers☆192Feb 20, 2026Updated last week
- ☆234Feb 3, 2026Updated 3 weeks ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆236Dec 29, 2023Updated 2 years ago
- Create statistic summary of an Oxford Nanopore read dataset☆131Nov 4, 2022Updated 3 years ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆106Jun 6, 2021Updated 4 years ago
- Synteny and Rearrangement Identifier☆447Apr 29, 2025Updated 10 months ago
- Bifrost graph gene caller.☆98Jan 20, 2026Updated last month
- PBSIM3: a simulator for all types of PacBio and ONT long reads☆101Apr 22, 2025Updated 10 months ago
- alignment to variation graph inducer☆157Jan 20, 2026Updated last month
- LexicMap: efficient sequence alignment against millions of prokaryotic genomes☆212Feb 11, 2026Updated 2 weeks ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆207Sep 22, 2023Updated 2 years ago
- Remove human reads from a sequencing run☆48Dec 16, 2025Updated 2 months ago
- A genome completeness evaluation tool based on miniprot☆234Sep 18, 2025Updated 5 months ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆337Updated this week
- De novo assembler for single molecule sequencing reads using repeat graphs☆905May 2, 2025Updated 9 months ago
- A fast approximate aligner for long DNA sequences☆286Oct 11, 2024Updated last year