nsmro / synphoniLinks
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).…
☆11Updated 2 years ago
Alternatives and similar repositories for synphoni
Users that are interested in synphoni are comparing it to the libraries listed below
Sorting:
- Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…☆10Updated 5 months ago
- An efficient tool for cross-population fixation index estimation on variant call format files☆10Updated last year
- YAGCloser: Yet-Another-Gap-Closer based on spanning of long reads.☆13Updated 3 weeks ago
- Telomere compliment tools☆20Updated last week
- Diploid genome assembly analysis tools☆14Updated last year
- Robust identification of orthologous Synteny with the Orthology Index☆34Updated last month
- ContScout sequence contamination filter tool☆26Updated 6 months ago
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆26Updated 2 months ago
- BUSCOMP: BUSCO Compiler and Comparison tool☆21Updated last year
- A tool to filter BUSCO output into single-copy gene files for phylogenomics☆13Updated last year
- Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO☆13Updated 7 years ago
- Yet another Hi-C scaffolding tool☆22Updated last year
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆18Updated 2 years ago
- ☆24Updated 2 weeks ago
- use paired-end transcriptome reads to scaffold genomes☆11Updated 6 years ago
- Domain based annotation of transposable elements☆21Updated last month
- ☆16Updated last year
- ☆14Updated last month
- ☆20Updated last year
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆38Updated 2 years ago
- PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)☆15Updated 4 years ago
- Genome alignment and synteny plots☆33Updated 2 years ago
- Multi-genome synteny block visualization tool☆49Updated last month
- ArchaicSeeker is a series of software for detecting archaic introgression sequences and reconstructing introgression history. The latest …☆18Updated 3 months ago
- ☆28Updated last year
- ☆22Updated 11 years ago
- Estimating gene family turnover rates by likelihood-based methods☆12Updated 5 years ago
- a broadly applicable tool for automated gene identification and retrieval☆32Updated 11 months ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 6 years ago
- Convergent substitution detection tool based on the PCOC model☆31Updated 3 years ago