Inference of ploidy and heterozygosity structure using whole genome sequencing data
☆295May 28, 2026Updated last week
Alternatives and similar repositories for smudgeplot
Users that are interested in smudgeplot are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Reference-free profiling of polyploid genomes☆144Oct 2, 2025Updated 8 months ago
- Fast genome analysis from unassembled short reads☆322Apr 8, 2024Updated 2 years ago
- A genome completeness evaluation tool based on miniprot☆245Sep 18, 2025Updated 8 months ago
- k-mer based assembly evaluation☆343May 21, 2026Updated 2 weeks ago
- haplotypic duplication identification tool☆288Oct 30, 2025Updated 7 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Fast and frugal disk based k-mer counter☆14Apr 1, 2021Updated 5 years ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆173Oct 29, 2025Updated 7 months ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆241Sep 6, 2024Updated last year
- Tools for fast and flexible genome assembly scaffolding and improvement☆565Feb 14, 2024Updated 2 years ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆197May 11, 2025Updated last year
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆397Apr 22, 2026Updated last month
- Synteny and Rearrangement Identifier☆471May 20, 2026Updated 2 weeks ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆270Jan 5, 2026Updated 5 months ago
- Extensive de-novo TE Annotator☆448May 12, 2026Updated 3 weeks ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Yet another Hi-C scaffolding tool☆181Nov 4, 2024Updated last year
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆216May 12, 2026Updated 3 weeks ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆179Oct 20, 2024Updated last year
- Identify and find telomeres, or telomeric repeats in a genome.☆165Nov 24, 2025Updated 6 months ago
- Fast and frugal disk based k-mer counter☆335May 8, 2026Updated last month
- Tool to plot synteny and structural rearrangements between genomes☆348Apr 7, 2025Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆210Nov 18, 2022Updated 3 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆217Jan 17, 2024Updated 2 years ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆780May 31, 2026Updated last week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆72Updated this week
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆190May 17, 2024Updated 2 years ago
- Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.☆181May 28, 2026Updated last week
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆382Feb 13, 2025Updated last year
- Fast and accurately polish the genome generated by long reads.☆243Jan 9, 2025Updated last year
- Align proteins to genomes with splicing and frameshift☆404Jan 5, 2026Updated 5 months ago
- software tools for haplotype assembly from sequence data☆233Feb 9, 2025Updated last year
- the pangenome graph builder☆500Mar 31, 2026Updated 2 months ago
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆164Nov 4, 2025Updated 7 months 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.
- GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the sc…☆149Apr 13, 2026Updated last month
- ☆242Jan 24, 2025Updated last year
- SRF: Satellite Repeat Finder☆104Jan 8, 2024Updated 2 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆217Mar 20, 2026Updated 2 months ago
- Fast and accurate de novo assembler for long reads☆402May 10, 2024Updated 2 years ago
- An accurate GFF3/GTF lift over pipeline☆539Aug 1, 2023Updated 2 years ago
- Yet another k-mer analyzer☆173Dec 30, 2025Updated 5 months ago