SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance and genome organization. It thus provides a syntenic complement not only for the last common ancestor of all sample species but for each node of interest within a user-provided cladogram (polytomies accepted).…
☆12May 7, 2023Updated 3 years ago
Alternatives and similar repositories for synphoni
Users that are interested in synphoni are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…☆12Jun 19, 2025Updated last year
- CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.☆24Nov 21, 2023Updated 2 years ago
- RNA-seq data amalgamation for a large-scale evolutionary transcriptomics☆13Updated this week
- The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at h…☆15Apr 14, 2023Updated 3 years ago
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆24Sep 23, 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.
- Merging assemblies by using adjacency algebraic model and classification☆22Jun 17, 2023Updated 3 years ago
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Mar 1, 2026Updated 4 months ago
- Algorithm For Gene Order Reconstruction in Ancestors☆86Jul 8, 2026Updated 2 weeks ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆70Apr 17, 2026Updated 3 months ago
- From the comparison of two extant genomes and corresponding gene families, PhylDiag detects conserved segments, i.e. segments of chromoso…☆15Aug 7, 2023Updated 2 years ago
- Homologizer: phasing gene copies into polyploid subgenomes☆13Feb 3, 2026Updated 5 months ago
- Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.☆20Apr 24, 2024Updated 2 years ago
- Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.☆15Feb 16, 2026Updated 5 months ago
- Possvm: find clusters of orthologs in phylogenies using species overlap & MCL☆19Jul 19, 2024Updated 2 years 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.
- Gene tree - species tree reconciliation from gene tree distributions☆43Apr 30, 2026Updated 2 months ago
- Generating UTRs from SHort Reads☆12Sep 28, 2020Updated 5 years ago
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated 2 years ago
- BOSTIn is a new, user-friendly phylogenetic artifact identification package.☆12Jul 11, 2026Updated last week
- CNEFinder: Finding Conserved Non-coding Elements in Genomes☆25Jul 21, 2021Updated 5 years ago
- ☆15Jun 6, 2023Updated 3 years ago
- Method used in the study on germline mutation rate estimation in 68 species of vertebrates.☆17Oct 11, 2021Updated 4 years ago
- scripts used to analyse horizontal transfer and evolution of transposable elements in 307 vertebrate species☆11May 16, 2021Updated 5 years ago
- Ancestral flowering plant genomes reconstruction☆14Jan 23, 2023Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Graph Clustering Merger☆36Mar 25, 2024Updated 2 years ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆16Apr 22, 2024Updated 2 years ago
- STAG: Species Tree from All Genes☆36Dec 10, 2018Updated 7 years ago
- ☆22Jan 29, 2024Updated 2 years ago
- use paired-end transcriptome reads to scaffold genomes☆12May 30, 2019Updated 7 years ago
- ☆38Feb 12, 2024Updated 2 years ago
- aCcelerated Alignment-FrEe sequence analysis☆13May 8, 2018Updated 8 years ago
- ExTraMapper is a tool to find Exon and Transcript-level Mappings of a given pair of orthologous genes between two organisms using sequenc…☆11Apr 20, 2022Updated 4 years ago
- k-mer similarity analysis pipeline☆24Apr 30, 2026Updated 2 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.
- A nextflow pipeline for polishing CLR assemblies☆18Feb 3, 2023Updated 3 years ago
- de novo assembly of RNA-seq data using ABySS☆33Mar 10, 2026Updated 4 months ago
- Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO☆13Oct 30, 2018Updated 7 years ago
- Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)☆20Jun 10, 2026Updated last month
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 8 years ago
- a broadly applicable tool for automated gene identification and retrieval☆42Jun 16, 2026Updated last month
- ☆28May 22, 2020Updated 6 years ago