Results for "phylogenomic"
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CNIDARIA: fast, reference-free phylogenomic clustering
Motivation: Identification of biological specimens is a major requirement for a range of applications. Reference-free methods analyse unprocessed sequencing data without r...2883 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of standalone tools to perform common tasks in comparative genomics...2271 days ago
ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
Automated Local Phylogenomic Analyses, or ALPHA, is a python-based application that provides an intuitive user interface for phylogenetic analyses and data visualization. It has f...2240 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
...files in a single folder. It can then take a set of Snippy results using the same reference and generate a core SNP alignment (and ultimately a phylogenomic tree). snippy --cpus 16 --ou...2029 days ago
IQ-TREE: Efficient software for phylogenomic inference
A fast and effective stochastic algorithm to infer phylogenetic trees by maximum likelihood. IQ-TREE compares favorably to RAxML and PhyML in terms of likelihood...1907 days ago
jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator
...g errors, mapping qualities, multiplexing, and optical/PCR duplicates. All outputs can be written to standard file formats. A swift, versatile phylogenomic and high-throughput sequencin...1749 days ago
GToTree: a user-friendly workflow for phylogenomics
GToTree is a user-friendly workflow for phylogenomics intended to give more researchers the capability to create phylogenomic trees. The open-access Bioinformatics Journal publication is available here, and documentation and examples can be found at the wiki here.806 days ago
PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome skimming data
Phylogenomic Analysis Pipeline for Herbarium Specimens What is PhyloHerb: PhyloHer...ng, Hongrui Zhang, and Charles C. Davis. 2022. PhyloHerb: A high‐throughput phylogenomic pipeline for processing genom...246 days ago
PhyloHerb: Phylogenomic Analysis Pipeline for Herbarium Specimens
What is PhyloHerb: PhyloHerb is a wrapper program to process genome skimming data collected from plant materials. The outcomes include the plastid genome (plasto...78 days ago
pipesnake: bioinformatics best-practice analysis pipeline for phylogenomic reconstruction
ausarg/pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data. The pipeline is b...78 days ago
