In Physiome.jp, the following tools contributing to the development of physiome and systems biology are released.
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PhysioDesigner is a tool to build mathematical computable models of hierarchical physiological systems. Models developed on PhysioDesigner are written in PHML format.
A simulator for models written in PHML and SBML formats. This can parse also PHML-SBML hybrid models. Flint is a standalone application. There is also cloud-based Flint, called Flint K3.
This is a medical image viewer supporting MAT, VTK, ANALYZE, NifTI, RAW, VOL, STL, OBJ, VRML formats. This can also convert formats among them.
MedMod tool is aimed at constructing models form medical and cellular images based on Matlab,
A visualiser of simulation data with voxel-based morphological data. This can create a cut-off animation if there are many data files of an object along time.
A graph plotter of time series data supporting CSV and ISD formats. ISD is a binary format defined in Flint project.
A converter between ISD and CSV formats. ISD is a binary data format describing data, including a time series data. ISD format was defined in Flint project.
This is a standalone client application of the Dynamic Brain Platform (DBPF), a neuroinformatics platform promoted by the INCF Japan Node, which has an online database.