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.
Drag and Drop file concatenate.
Get set results from lists in 2 files.
DADA2: Infer amplicon sequence variants (ASVs) across samples
NGMLST: Next Generation Multilocus Sequence Typing using DADA2
Collapse low support nodes on tree.
Import csv file to graph.
Create haplotype table with MeShClust.
Create haplotype table with QIIME (UCLUST) or VSEARCH.
Run de novo tree inference using RAxML.
Convert Phylogenetic tree from Newick to Nexus format.
Process data for structure tool.
Create files for T-BAS from CIFR phyloXML.
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 CIFR phyloXML file.
View telescope tree from CIFR phyloXML file.
Install locally and run neutrality test.
Download FASTA and metadata for query of GenBank.