Genome wide orthology inference and dNdS estimation
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Updated
Oct 10, 2023 - R
Genome wide orthology inference and dNdS estimation
Taxon-aware analysis of clustered protein sequences
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
a broadly applicable tool for automated gene identification and retrieval
A high performance tool to identify orthologs and paralogs across genomes.
Protein orthologous group assignment with deep learning
a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
Find reciprocal best hits (DIAMOND or BLAST) between two (or more!) sets of sequences.
Use Thor's Axe to cut exons into their evolutionary building blocks ⚡
Feature-aware Directed OrtholoG search
Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.
scripts to process, join, split, or add new proteins to a supermatrix alignment using hmms
Trace intervals between genomes using a synteny map
A shell script that uses diamond to compute the reciprocal best hits between two proteomes in a rush.
Tree-based orthology inference with functionality for reducing contamination
A snakemake workflow for the OrthoEvol python package.
Algorithm to infer clusters of isoorthologous transcripts using gene-level homology relationships and a Reciprocal Best Hits approach
A stand-alone tool for evaluating simple statistics of orthologs
Sample code for cross-species analysis of MYC-driven transgenic zebrafish cancer model
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