Unclassified tools | Synthetic biology
SISSI
Desktop

SISSI Simulating Site-Specific Interactions

Simulates evolution of a nucleotide sequence along a phylogenetic tree…

Simulates evolution of a nucleotide sequence along a phylogenetic tree incorporating user defined site-specific interactions. SISSI is a general framework to take site-specific interactions into…

GenBank…
Web

GenBank Converter

A webapp which converts Genbank format sequence files to and from SBOL XML…

A webapp which converts Genbank format sequence files to and from SBOL XML format files.

Seq-Gen
Desktop

Seq-Gen Sequence Generator

Simulates the evolution of nucleotide sequences along a phylogeny, using common…

Simulates the evolution of nucleotide sequences along a phylogeny, using common models of the substitution process. Seq-Gen has been designed to be a general purpose simulator that incorporates most…

SBOLme
Data

SBOLme

Hosts a repository of SBOL 2.0-compliant metabolic parts for metabolic…

Hosts a repository of SBOL 2.0-compliant metabolic parts for metabolic engineering. The SBOLme parts are divided into four different types: chemical compound, reaction, EC number, and protein. SBOLme…

Finch
Web

Finch

A web app for combinatorial genetic design space generation. Finch needs…

A web app for combinatorial genetic design space generation. Finch needs inscription to the web platform Synbiotools to be accessible.

Synbiotools
Web

Synbiotools

A workflow for synthetic biology. Synbiotools contains a tool for design…

A workflow for synthetic biology. Synbiotools contains a tool for design visualization (Pigeon) without inscription needed. After inscription to this platform, it also contains a tool for…

SBPkb
Desktop

SBPkb Standard Biological Parts knowledgebase

A publically accessible semantic web resource for synthetic biology. The SBPkb…

A publically accessible semantic web resource for synthetic biology. The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology.

GoSynthetic
Web

GoSynthetic

Provides a simple and fast way to analyse biological processes applying a…

Provides a simple and fast way to analyse biological processes applying a hierarchical database. Four different search modes are implemented. Furthermore, protein interaction data, cross-links to…

Eugene
Desktop

Eugene

An ecosystem of human- and machine-readable languages developed to speed up and…

An ecosystem of human- and machine-readable languages developed to speed up and innovate the design of novel biological DNA Sequences, Parts, Devices, and Systems.

SBOL
Format

SBOL Synthetic Biology Open Language

A data exchange standard for descriptions of genetic parts, devices, modules,…

A data exchange standard for descriptions of genetic parts, devices, modules, and systems. SBOL represents synthetic biology designs in a community-driven, formalized format for exchange between…

REACT
Desktop

REACT

Contains a novel network inference algorithm within the algebraic framework of…

Contains a novel network inference algorithm within the algebraic framework of Boolean polynomial dynamical system (BPDS). The algorithm considers time series data, including that of perturbation…

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