A collection of tools for comparative phylogenomics analyses, phylodiversity estimates, visualization tools of underlying genomic structure and phylogenomic conflict, and pre-processing of sequence data for phylogenetic analyses.
Create graph with TCS.
Create patristic distance rings with DendroPy.
Show tree with structure plots.
Select fungal taxonomy using UNITE ITS database.
Create pie charts
Split combined ITS/LSU into separate files with ITSx
Concatenate several loci.
Merge two voucher tables into one.
Upload archive created by TBAS or DeCIFR utility.
Concatenate several text files into one file.
Get set results from lists in 2 files.
Import csv file to graph.
NGMLST: Next Generation Multilocus Sequence Typing using DADA2
DADA2: Infer exact amplicon sequence variants (ASVs) from barcode sequences
Process data for structure tool.
Create haplotype table with MeShClust.
Cluster sequences with QIIME (UCLUST) or VSEARCH.
Run de novo tree inference using RAxML.
Convert Phylogenetic tree from Newick to Nexus format.
Collapse low support nodes on tree.
Create files for T-BAS from MEP file.
Align sequence with MAFFT
Upload file directly from server to server
Upload multiple trees to create input file for Mesquite Hypha.
View and download data from MEP file.
View telescope tree from MEP file.
Install locally and run neutrality test.
Download FASTA and metadata for query of GenBank.
Retrieve MEP files from archive by run id
Estimation of migration rates using Isolation-with-Migration (IMa3) models