davidemms / STRIDELinks
STRIDE: Species Tree Root Inference from Gene Duplication Events
☆11Updated 7 years ago
Alternatives and similar repositories for STRIDE
Users that are interested in STRIDE are comparing it to the libraries listed below
Sorting:
- PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)☆15Updated 4 years ago
- A high performance tool to identify orthologs and paralogs across genomes.☆27Updated 2 years ago
- An R package to infer and analyze synteny networks from protein sequences☆36Updated 5 months ago
- A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes☆30Updated last year
- Yet another Hi-C scaffolding tool☆22Updated last year
- PSAURON is a machine learning model for rapid assessment of protein coding gene annotation☆49Updated 3 weeks ago
- Helper scripts for making phylogenies☆15Updated last year
- TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…☆14Updated 5 years ago
- Modular Genome Assembly, Annotation and Assessment Pipeline☆15Updated last month
- A Python package for testing evolutionary hypotheses in genome-wide approaches.☆32Updated 4 years ago
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Updated 6 years ago
- STAG: Species Tree from All Genes☆34Updated 7 years ago
- a broadly applicable tool for automated gene identification and retrieval☆32Updated last year
- FASconCAT-G offers a wide range of possibilities to edit and concatenate multiple nucleotide, amino acid, and structure sequence alignmen…☆35Updated last year
- Tools to process OrthoFinder output: Calculate the most common gene name of an orthogroup by majority vote and create plots analogous to …☆19Updated last year
- genEra is a fast and easy-to-use command-line tool that estimates the age of the last common ancestor of protein-coding gene families.☆54Updated last year
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework☆24Updated 3 years ago
- Phyling: phylogenetic inference from annotated genomes☆29Updated 3 weeks ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆31Updated 4 years ago
- BUSCOMP: BUSCO Compiler and Comparison tool☆21Updated last year
- Infering ancestral synteny with hierarchical orthologous groups☆36Updated 2 months ago
- Convert Tandem Repeat Finder dat file output into gff3 format☆30Updated last month
- ☆26Updated 4 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Updated 2 years ago
- Tool for fully-automated inference of species trees from raw genome assemblies☆43Updated last month
- Data analysis of Funannotate and Orthofinder outputs to Pangenome results☆23Updated 5 years ago
- Automatic evaluation of HGTs☆30Updated 11 months ago
- Chromosome-level synteny plotting using orthologous regions☆31Updated last year
- Pangenome analysis of eukaryotes.☆20Updated 5 years ago
- GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology☆26Updated 8 months ago