T-BAS: Tree-Based Alignment Selector toolkit v2.1.1

Purchasing a license allows users to use T-BAS within Docker, a platform that allows the program to be run within a cloud or on a personal computer, with internet access required only to check the login and license validity, and all data uploaded and produced by it is contained locally.

Public T-BAS Portal

Unlimited Free Trial
  • Public version of T-BAS is considered to be the free trial version
  • Will always have the most current updates
  • The example files could be used to demonstrate features of the tools

T-BAS v1.0

1 User: $3,000   5 Users: $10,000
Yearly license
  • Docker
  • Single-locus placements
  • Three included trees: fungi, Ascomycota (Pezizomycotina), and Prokaryote (bacteria)
  • Two phylogeny-based placement options: EPA and backbone constraint tree
  • Classification of unknown nrITS or 16S rDNA barcode sequences using the UNITE fungal nrITS database or SILVA bacterial database
  • Save trees and color legends as SVG, PNG or PDF files
  • More Information

T-BAS v2.1.1

1 User: $10,000   5 Users: $50,000
Yearly license
  • Docker
  • Multi-locus placements
  • All public trees included
  • Three phylogeny-based placement options: EPA, backbone constraint tree, and de novo
  • Pre-filtering and/or classification of unknown nrITS or 16S rDNA barcode sequences using the UNITE fungal nrITS database or SILVA bacterial database
  • Save trees, networks and color legends as SVG, PNG or PDF files
  • More Information

Are you a PSMCC Member? Click here for the discounted pricing information.

For questions about T-BAS features contact us.

For questions about licensing contact NC State Office of Research Commercialization.

Software Details

Software
Included Tools
Software
Included Tools
T-BAS v1.0
  • Single-locus placement of unknown taxa sequences and user-customizable metadata on three included trees: fungi, Ascomycota, and bacteria
  • Option to select from two phylogeny-based placement options: EPA and backbone constraint tree
  • Classification of unknown nrITS barcode sequences using the UNITE fungal nrITS database
  • Standardization of phylogenetic placement and metadata output using the extended PhyloXML format
  • Metadata displayed as colorized outer rings in phylogenies
  • Save trees and color legends as SVG, PNG or PDF files
T-BAS v2.1.1
  • Multi-locus placement of unknown taxa sequences with user-customizable metadata on eleven included reference trees
  • Multi-locus placement on user-uploaded reference tree, multi-locus sequence alignments and metadata
  • Standardization of phylogenetic placement and metadata output using the extended PhyloXML format
  • Perform cumulative placement of unknown taxa sequences on reference tree
  • Pre-filtering and/or classification of unknown nrITS or 16S rDNA barcode sequences using the UNITE fungal nrITS database or SILVA bacterial database
  • Option to select from three phylogeny-based placement options: EPA, backbone constraint tree, and de novo phylogenetic reconstruction using RAxML
  • Option to select specific clades and perform phylogenetic inference across single or multiple alignments with RAxML or network inference using TCS and NetworkX
  • Color editor for synchronizing color-coded attributes across subtrees and networks
  • Display metadata as colorized outer rings in phylogenies
  • Display network graphs with node attributes
  • Save trees, networks and color legends as SVG, PNG or PDF files

More Information

Training
All licensed software will include tutorials for using T-BAS. If training workshops are desirable, contact us for more information.

Software Updates
All licenses are available for 1 year. This will allow users to obtain newest version updates. Version updates can be viewed on the public version of T-BAS.

Support
Contact us if support is needed.

REST Server
We have made available as open source on GitHub a REST server that can be used to extract metadata of TBAS runs from MEP (metadata enhanced phyloXML) files.

Plant Soil Microbial Community Consortium (PSMCC)

The Plant Soil Microbial Community Consortium (PSMCC) is an industry member-supported research program within NC State’s Center for Integrated Fungal Research. The PSMCC mission is to model, predict and manage the consequences of environmental impacts on microbes and microbial processes, from the sub-cellular level to large-scale ecosystems. Consortium research projects demonstrate the potential to bridge basic (fundamental) and applied (translational) research to accelerate the pace of discovery and application of new technologies, with a focus on the Plant Soil Microbial Community and its impact on plant health and productivity.

Full members are designed for larger businesses. Associate members are designed for smaller businesses.

Click here for more information and details about joining PSMCC.

Full Member Associate Member
T-BAS v1.0 Single User Included in membership Included in membership
T-BAS v1.0 Multi User Included in membership $5,000
T-BAS v2.1.1 Single User $5,000 $5,000
T-BAS v2.1.1 Multi User $25,000 n/a
Annual 1 Day Training Workshop 2 attendees included in membership, $500 per additional attendee 1 attendee included in membership, $500 per additional attendee