Repositories list

• LASSI

  Public
  LASSI - Lattice Simulation Engine For Stickers And Spacer Interactions

  C

  •

  GNU General Public License v3.0

  •7•15•2•0•Updated Jan 4, 2025Jan 4, 2025

• Motility

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• material_properties

  Public
  Data repository and analysis routines used to study material properties of prion-like low-complexity domains as described in https://doi.org/10.1038/s41567-024-02558-1

  MATLAB

  •0•1•0•0•Updated Sep 9, 2024Sep 9, 2024

• metastable-condensates

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Jun 11, 2024Jun 11, 2024

• n130-liquid-structure

  Public
  Data and analyses scripts used for `doi:10.1038/s41467-024-47602-z`

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 29, 2024Apr 29, 2024

• Glutamate_vs_Chloride_Clustering

  Public
  Jupyter Notebook

  •0•1•0•0•Updated Apr 19, 2024Apr 19, 2024

• King-etal-Nucleoli

  Public
  This GitHub repository contains the code and data for the manuscript "Macromolecular Condensation Organizes Nucleolar Sub-Phases to Set Up a pH Gradient." Available at SSRN: https://ssrn.com/abstract=4520791 or http://dx.doi.org/10.2139/ssrn.4520791

  biophysicscondensatesnucleolus+ 1phase-separation

  Jupyter Notebook

  •0•1•0•0•Updated Feb 15, 2024Feb 15, 2024

• xdrf

  Public
  This directory contains source of the portable data compression library xdrf, which was developed for EUROPORT.

  M4

  •

  MIT License

  •4•7•2•0•Updated Jan 6, 2024Jan 6, 2024

• FIREBALL

  Public
  A suite of computational tools for constructing, analyzing, and fitting phase diagrams and coil-to-globule transitions.

  Python

  •

  GNU Lesser General Public License v3.0

  •2•2•0•0•Updated Nov 1, 2023Nov 1, 2023

• dynamical-control

  Public
  This GitHub repository contains the code and data for the manuscript "Dynamical control enables the formation of demixed biomolecular condensates" (BioRxiv link: https://www.biorxiv.org/content/10.1101/2023.01.04.522702v1)

  condensatescomputational-biophysicsphase-separation+ 1dynamical-control

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 26, 2023Oct 26, 2023

• Data-and-Analysis-for-PLCD-Mixtures

  Public
  Data and Analysis code used in the following paper: "Phase Separation of Protein Mixtures is Driven by the Interplay of Homotypic and Heterotypic Interactions"

  Cython

  •0•2•0•0•Updated Aug 13, 2023Aug 13, 2023

• localCIDER

  Public
  localCIDER - sequence analysis tool for disordered protein sequences

  Python

  •

  GNU General Public License v2.0

  •14•23•2•0•Updated May 15, 2023May 15, 2023

• Interfacial_Analyses

  Public
  Analysis routines used in the following manuscript https://doi.org/10.1038/s41467-022-35370-7

  Cython

  •0•0•0•0•Updated Nov 26, 2022Nov 26, 2022

• qc-CAMPARI

  Public
  Fortran

  •

  GNU General Public License v2.0

  •0•0•0•0•Updated Jan 5, 2022Jan 5, 2022

• colgrab

  Public
  Script which extracts a number of columns from a text file while ignoring headers. Basically awk for those who can't use awk.

  Python

  •

  GNU General Public License v2.0

  •0•1•0•0•Updated Oct 28, 2021Oct 28, 2021

• PLCD-Data-Repository-and-Analysis-Routines

  Public
  Data repository and analysis routines used to study prion-like low-complexity domains as described in https://www.biorxiv.org/content/10.1101/2021.01.01.425046v1

  Python

  •0•1•0•0•Updated Oct 5, 2021Oct 5, 2021

• damfret_classifier

  Public
  This is a Python package for classifying DAmFRET data based on supervised learning. The data can also be analyzed to allow mechanistic inferences regarding nucleation of ordered assemblies.

  proteinssupervised-learningclassification-algorithm+ 4nucleationphase-separationmechanistic-inferenceordered-assemblies

  Python

  •0•2•0•0•Updated Mar 25, 2021Mar 25, 2021

• simprep

  Public
  correct salt concentration for a CAMPARI simulation correct salt concentration for a CAMPARI simulation

  Python

  •

  GNU General Public License v2.0

  •2•1•0•0•Updated Jan 24, 2020Jan 24, 2020

• Pyvolution

  Public
  Python

  •0•1•0•0•Updated Jun 13, 2014Jun 13, 2014

• visualizeCampari

  Public
  A set of scripts to automatically visualize the data output from CAMPARI in a generalized format.

  MATLAB

  •0•0•0•0•Updated May 13, 2014May 13, 2014