Ultra-fast de novo assembler using long noisy reads
☆136Feb 24, 2021Updated 5 years ago
Alternatives and similar repositories for smartdenovo
Users that are interested in smartdenovo are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆531Sep 27, 2023Updated 2 years ago
- A single molecule sequence assembler for genomes large and small.☆700Feb 24, 2026Updated last month
- Nanopore data assembler☆166Mar 27, 2022Updated 4 years ago
- Pilon is an automated genome assembly improvement and variant detection tool☆381Apr 10, 2022Updated 4 years ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆57Jan 26, 2023Updated 3 years 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.
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆297May 9, 2024Updated last year
- Fast and accurately polish the genome generated by long reads.☆242Jan 9, 2025Updated last year
- Fast and accurate de novo assembler for long reads☆400May 10, 2024Updated last year
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆354Jul 19, 2025Updated 9 months ago
- A fuzzy Bruijn graph approach to long noisy reads assembly☆39Mar 15, 2017Updated 9 years ago
- MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads☆111Oct 2, 2020Updated 5 years ago
- calling SVs from Blasr contig level alignments☆54Mar 9, 2018Updated 8 years ago
- Mummer alignment tool☆554Feb 4, 2025Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- De novo assembler for single molecule sequencing reads using repeat graphs☆915Apr 3, 2026Updated 2 weeks ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆273Oct 13, 2022Updated 3 years ago
- The MARVEL assembler☆80Jul 7, 2023Updated 2 years ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆30Mar 31, 2015Updated 11 years ago
- A program to call variants from genome alignment☆83Apr 29, 2025Updated 11 months ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆210Nov 18, 2022Updated 3 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆308Mar 18, 2024Updated 2 years ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆119Apr 7, 2021Updated 5 years ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆293Feb 25, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆179Oct 20, 2024Updated last year
- A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly☆11Feb 28, 2017Updated 9 years ago
- Yet another k-mer analyzer☆167Dec 30, 2025Updated 3 months ago
- ONT assembly and Illumina polishing pipeline☆87Dec 8, 2020Updated 5 years ago
- PacBio hybrid error correction through iterative short read consensus☆60May 17, 2019Updated 6 years ago
- Reference-free profiling of polyploid genomes☆144Oct 2, 2025Updated 6 months ago
- Quality control for MinION sequencing data☆218Mar 17, 2026Updated last month
- 3D de novo assembly (3D DNA) pipeline☆223Nov 29, 2023Updated 2 years ago
- FALCON: experimental PacBio diploid assembler -- Out-of-date -- Please use a binary release: https://github.com/PacificBiosciences/FALCON…☆205Mar 4, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- The LACHESIS software, as described in Nature Biotechnology (http://dx.doi.org/10.1038/nbt.2727)☆80Oct 12, 2018Updated 7 years ago
- haplotypic duplication identification tool☆280Oct 30, 2025Updated 5 months ago
- adapter trimmer for Oxford Nanopore reads☆387May 8, 2024Updated last year
- k-mer based assembly evaluation☆340Jun 28, 2024Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆766Updated this week
- Sequence-to-graph mapper and graph generator☆475Aug 11, 2025Updated 8 months ago
- software tools for haplotype assembly from sequence data☆231Feb 9, 2025Updated last year