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biomass

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Forked frombiomass-dev/biomass

A Python Framework for Modeling and Analysis of Signaling Systems

Python 1 1

pasmopy

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Forked frompasmopy/pasmopy

Patient-Specific Modeling in Python

Python

ASURAT

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Forked fromkeita-iida/ASURAT

ASURAT: functional annotation-driven unsupervised clustering of single-cell transcriptomes

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Showing 10 of 32 repositories

context-dependent-GRNs Public Forked fromMasaaaato/context-dependent-GRNs
This repository provides reproducible code for the study by Tsutsui M. et al. (2025), focused on constructing and analyzing context-aware gene regulatory networks (GRNs) derived from biomedical literature.
okadalabipr/context-dependent-GRNs’s past year of commit activity
Jupyter Notebook0 1 0 0 UpdatedOct 4, 2025
BioMathForge Public Forked fromMasaaaato/BioMathForge
BioMathForge is a comprehensive toolkit for generating, integrating, and analyzing biochemical reaction networks. It combines AI-powered reaction network generation with advanced pathway analysis to provide insights into biological systems.
okadalabipr/BioMathForge’s past year of commit activity
Python0 1 0 0 UpdatedSep 16, 2025
text2model-from-knowledge Public
Extending BioMASS to construct mathematical models from external knowledge (Arakane et al., 2024)
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Python 1Apache-2.0 1 0 0 UpdatedFeb 8, 2025
cREscENDO Public
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Python0MIT 1 0 0 UpdatedNov 28, 2024
DynProfiler Public Forked fromMasaaaato/DynProfiler
okadalabipr/DynProfiler’s past year of commit activity
Jupyter Notebook0 1 0 0 UpdatedOct 9, 2024
HER2_Cellcycle Public
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R00 0 0 UpdatedMay 30, 2024
Haga2023 Public
okadalabipr/Haga2023’s past year of commit activity
R 1MIT0 0 0 UpdatedJan 24, 2024
periodontitis Public
okadalabipr/periodontitis’s past year of commit activity
Python 10 0 0 UpdatedJun 8, 2023
inflammatory-aging Public
Tabata, S. et al.
okadalabipr/inflammatory-aging’s past year of commit activity
R0MIT0 0 0 UpdatedMar 9, 2023
BioMASS.jl Public Forked frombiomass-dev/BioMASS.jl
Julia interface to BioMASS, tailored to parameter estimation in systems biology models
okadalabipr/BioMASS.jl’s past year of commit activity
Julia0MIT 2 0 0 UpdatedFeb 28, 2023

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