MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
☆298Oct 4, 2025Updated 11 months ago
Alternatives and similar repositories for MCScanX
Users that are interested in MCScanX are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Python library to facilitate genome assembly, annotation, and comparative genomics☆928Updated this week
- A pipeline used to identify different modes of duplicated gene pairs☆123Jul 22, 2025Updated last year
- SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity …☆93Jul 30, 2026Updated last month
- Phylogenetic orthology inference for comparative genomics☆869Jul 15, 2025Updated last year
- ☆261Jan 24, 2025Updated last year
- 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.
- Extensive de-novo TE Annotator☆470Updated this week
- Synteny and Rearrangement Identifier☆485Jul 1, 2026Updated 2 months ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆469Jun 17, 2026Updated 2 months ago
- Tool to plot synteny and structural rearrangements between genomes☆354Jul 27, 2026Updated last month
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆220Jun 30, 2026Updated 2 months ago
- Any Way to Show Multi genomic Synteny☆230Jul 4, 2025Updated last year
- Identify and find telomeres, or telomeric repeats in a genome.☆175Nov 24, 2025Updated 9 months ago
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆211Nov 23, 2025Updated 9 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆182Jun 23, 2026Updated 2 months ago
- 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.
- Mummer alignment tool☆574Feb 4, 2025Updated last year
- Workflow for Building Microsynteny Networks☆62Jul 30, 2022Updated 4 years ago
- k-mer based assembly evaluation☆353Jul 6, 2026Updated last month
- Using Deep Learning to predict gene annotations☆304Jul 22, 2026Updated last month
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆41Aug 16, 2026Updated 2 weeks ago
- An R package to identify and classify duplicated genes from whole-genome protein sequence data☆37Sep 11, 2025Updated 11 months ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆246Sep 6, 2024Updated last year
- ☆88Jul 12, 2024Updated 2 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆220Jan 17, 2024Updated 2 years 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.
- haplotypic duplication identification tool☆294Oct 30, 2025Updated 10 months ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆576Feb 14, 2024Updated 2 years ago
- Fast genome analysis from unassembled short reads☆325Apr 8, 2024Updated 2 years ago
- PASA software☆204Feb 12, 2025Updated last year
- Version 5 of the CAFE phylogenetics software☆177Mar 16, 2026Updated 5 months ago
- A program for assessing the T2T genome continuity and completeness☆95Feb 28, 2026Updated 6 months ago
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆172Nov 4, 2025Updated 10 months ago
- Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche…☆86Jan 6, 2026Updated 7 months ago
- Genome annotation with AUGUSTUS☆339May 30, 2026Updated 3 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆180Oct 20, 2024Updated last year
- A shiny application to visualize MCscan result☆37Jun 26, 2026Updated 2 months ago
- Official home of genome aligner based upon notion of Cactus graphs☆703Updated this week
- Fast genome-wide functional annotation through orthology assignment☆776Aug 13, 2026Updated 3 weeks ago
- A box of genomics tools☆22Jun 10, 2026Updated 2 months ago
- PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics☆38Apr 28, 2023Updated 3 years ago
- This is the standalone version of the EviAnn pipeline☆183Aug 11, 2026Updated 3 weeks ago