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homologizer: Phylogenetic phasing of gene copies into polyploid subgenomes
This tutorial describes the usage of homologizer to phase gene copies into polyploid subgenomes. The tutorial is...Freyman, W.A., Johnson, M.G., and C.J. Rothfels. 2022. Homologizer: phylogene...389 days ago
PhyloHerb: A highâthroughput phylogenomic pipeline for processing genome skimming data
Phylogenomic Analysis Pipeline for Herbarium Specimens What is PhyloHerb: PhyloHerb i...mal DNAs (NTS+ETS+18S+ITS1+5.8S+ITS2+28S), alignments of gene and...overage (5x cpDNA) plastome phylogeny, recycling plastid gene...294 days ago
Orthoflow: workflow for phylogenetic inference of genome-scale datasets of protein-coding genes
Orthoflow is a workflow for phylogenetic inference of genome-scale datasets of protein-coding genes. Our goal was to make it straightforward to...P, many additional ortholog alignments can be generate...gs to retain high-quality alignments for phylogene...126 days ago
PhyloHerb: Phylogenomic Analysis Pipeline for Herbarium Specimens
What is PhyloHerb: PhyloHerb is a wrapper program to process genome skimming data...mal DNAs (NTS+ETS+18S+ITS1+5.8S+ITS2+28S), alignments of gene and...overage (5x cpDNA) plastome phylogeny, recycling plastid gene...126 days ago
OMArk: software for proteome (protein-coding gene repertoire) quality assessment
OMArk is a software for proteome (protein-coding gene repertoire) quality assessment. It provides measures..., characterizes the consistency of all protein coding genes wi...Amer software for fast placement of all proteins into gene...126 days ago
doubletrouble: identify duplicated genes from whole-genome protein sequences and classify
doubletrouble aims to identify duplicated genes from whole-genome protein sequences and classify them...ied into SD- and SSD-derived (small-scale duplication) gene pai...esides classifying gene pairs, users can also classify gene...113 days ago
bacLIFE: an automated genome mining tool for identification of lifestyle associated genes
bacLIFE is a streamlined computational workflow that annotates bacterial genomes an...t bacterial lifestyles and to pinpoint candidate genes, denominated lifestyle-associated genes (L...module Predicts, clusters and annotates the gene...103 days ago