Collection of Graph Visualization tools !
Standard approaches to genome inference and analysis relate sequences to a single linear reference genome. This is efficient but has a fundamental problem: Differences...527 days ago
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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 subgeno...n, M.G., and C.J. Rothfels. 2022. Homologizer: phylogenetic phasing of gene copies int...398 days ago
MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
MitoHiFi v3.2 is a python pipeline distributed under MIT License ! MitoHiFi was first developed to assemble the mitogenomes for a wide range of species in the Darwin Tree of Life Project (DToL) https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05385-y304 days ago
PhyloHerb: A highâthroughput phylogenomic pipeline for processing genome skimming data
Phylogenomic Analysis Pipeline for Herbarium Speci...s (NTS+ETS+18S+ITS1+5.8S+ITS2+28S), alignments of gene and intergenic regions, and a s...(5x cpDNA) plastome phylogeny, recycling plastid genes from target enrichment data, retrieving...303 days ago
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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 straightfo...dditional ortholog alignments can be generated from multi-copy gene fam...ain high-quality alignments for phylogenetic inference. The workflow pr...135 days ago