Webservers / webtools

A series of tools can be accessed on the iTaxoTools Galaxy webserver, under the following link:

http://galaxy.itaxotoolsweb.org/

Some of the programs included in iTaxoTools have been implemented on the websites of other institutitions. Especially, the Paris museum (MNHN) offers web implementations of ABGD, ASAP and LIMES. Especially the ASAP webtool offers a series of interactive options not available in the iTaxoTools version:

ABGD webtool
ASAP webtool
LIMES website

The Exelixis lab headed by Alexandros Stamatakis at the Heidelberg Institute for Theoretical Studies offers a web implementation of PTP, as well as additional resources to use this program:

PTP webtool

Websites / tutorials

Tutorial videos for the iTaxoTools implementation of several tools can be found on YouTube:

LIMES
ASAP
ABGD
MolD

Detailed information and a tutorial to run DELINEATE can be found on the website of Jeet Sukumaran:

DELINEATE website

and useful information on tr2 is found on the website of Tomochika Fujisawa:

TR2 website

Projects and PIs

iTaxoTools started in the framework of the Taxon-Omics priority program of the DFG:

Taxon-Omics

Additional aspects on the archiving of taxonomic data packages will be developed together with the German Federation of Biological Data:

GFBio

Who we are: A collection of personal websites of some iTaxoTools collaborators:

Miguel Vences

Aurelien Miralles

Mark D. Scherz

Nicolas Puillandre

Susanne S. Renner

Code repositories

All code of iTaxoTools is open source and available from dedicated GitHub repositories. The main link to the entire project is the following:

iTaxoTools GitHub

The latest releases of executables and manual can be downloaded from this present website, but also from the following GitHub repository:

iTaxoTools executables

A full list of the repositories of all single tools is given in the following table:

Tool	Github repository (original / modified)
dnaconvert	https://github.com/iTaxoTools/DNAconvert
latlonconverter	https://github.com/iTaxoTools/latlon-converter
fastmerge	https://github.com/iTaxoTools/fastsplit-merge
fastsplit	https://github.com/iTaxoTools/fastsplit-merge
specimentablepruner	https://github.com/iTaxoTools/specimentablepruner
specimentablemerger	https://github.com/iTaxoTools/specimentablemerger
linebreaker	https://github.com/iTaxoTools/linebreaker
simplestatscalculator	https://github.com/iTaxoTools/simple_stat
unitconverter	https://github.com/iTaxoTools/UnitConverter
spartmapper	https://github.com/iTaxoTools/Spartmapper
nodenamecorrector	https://github.com/iTaxoTools/nodenamecorrector
pyr8s	https://github.com/iTaxoTools/pyr8s
TaxI2	https://github.com/iTaxoTools/TaxI2
morphometricanalyzer	https://github.com/iTaxoTools/morphometricanalyzer
dnadiagnoser	https://github.com/iTaxoTools/dnadiagnoser
PTP	https://github.com/zhangjiajie/PTP https://github.com/iTaxoTools/PTP-pyqt5
GMYC	https://github.com/zhangjiajie/pGMYC https://github.com/iTaxoTools/GMYC-pyqt5
tr2	https://github.com/tfujisawa/tr2-delimitation-git https://github.com/iTaxoTools/pyqt5-tr2
DELINEATE	https://github.com/jeetsukumaran/delineate https://github.com/iTaxoTools/pyqt5-delineate
ABGD	https://bioinfo.mnhn.fr/abi/public/abgd/ https://github.com/iTaxoTools/ABGDpy
ASAP	https://bioinfo.mnhn.fr/abi/public/asap/ https://github.com/iTaxoTools/ASAPy
LIMES 2.0	https://github.com/iTaxoTools/LIMES
MolD	https://github.com/SashaFedosov/MolD https://github.com/iTaxoTools/MolD_pyqt5
Concatenator	https://github.com/iTaxoTools/concatenator https://github.com/iTaxoTools/ConcatenatorGui
MAFFT	https://github.com/iTaxoTools/MAFFTpy
FastTree	https://github.com/iTaxoTools/FastTreePy