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Raw experimental and simulation data for FcsIT: An Open-Source, Cross-Platform Tool for Correlation and Analysis of Fluorescence Correlation Spectroscopy Data

Version 1.0

Kalwarczyk, Tomasz, 2026, "Raw experimental and simulation data for FcsIT: An Open-Source, Cross-Platform Tool for Correlation and Analysis of Fluorescence Correlation Spectroscopy Data", https://doi.org/10.18150/N8VWI6, RepOD, V1

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Description

This dataset supports the findings of the research article “FcsIT: An Open-Source, Cross-Platform Tool for Correlation and Analysis of Fluorescence Correlation Spectroscopy Data”. The article introduces FcsIT, an open-source, cross-platform application for calculating, statistically characterising, and fitting fluorescence correlation spectroscopy (FCS) data. FcsIT reads time-tagged, time-resolved measurements, supports TCSPC-based filtering of photon data, calculates correlation curves using input-dependent multipletau or asynchronous time-tag-to-correlation algorithms, estimates correlation-curve uncertainties through bootstrap resampling of segment-wise curves, and provides predefined and user-defined fitting models. The study validates the correlation and fitting workflow using simulated data with known ground-truth parameters and experimental Rhodamine 110 measurements, and compares it with a commercial reference workflow.


The deposited data measurements comprise 16 independently simulated 60 s fluorescence-intensity traces, each containing two detection channels, and 45 experimental PicoQuant PTU datafiles. The experimental measurements contain five repeats for each acquisition time of 5, 10, 20, 30, 45, 60, 90, 120, and 150 s. The repository also contains references to ACF data obtained with the commercial software, FCSIT correlation curves, fitting results, processing files, and full-trace nested-loop autocorrelation references. The simulated and experimental data were processed with FcsIT v2.0.2 for circular-block bootstrap block lengths L=1 to L=6 and a range of valid segment counts. Time-binned simulation data were additionally analysed using both the “average” and “first” multipletau compression conventions. The deposited data and scripts reproduce the analyses from Figures 5–8 of the article and the corresponding supplementary figures.


The published repository contains four archive groups. The multipart archive consists of Raw_data_1.zip, Raw_data_1.z01, and Raw_data_1.z02; all three files must be downloaded, kept together, and extracted by opening Raw_data_1.zip. It contains the simulated traces in the form of TXT files, experimental PTU data files, reference results from commercial software, completed FcsIT outputs, and intermediate analysis files. CLI_scripts.zip contains readable Linux shell and Windows batch workflows that automate correlation and fitting through the FcsIT TCP/JSON interface, together with a Python implementation of the unsegmented nested-loop simulation reference. Figures_1.zip contains plotting scripts, prepared CSV summary tables, plotting metadata, and recorded environment versions for Figures 5–8 and the supplementary analyses. Common_MCELL_FERNET_config_files.zip contains the MCell 3 and FERNET 1.4 configuration files used to generate the simulated fluorescence data.


Detailed extraction instructions, archive inventories, software requirements, processing order, analysis settings, and figure-reconstruction commands are described in README.md.

(2026-11-10)
Subject
Chemistry; Physics
Keyword

Fluorescence correlation spectroscopy

CC BY - Creative Commons Attribution 4.0 CC BY - Creative Commons Attribution 4.0

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1 to 7 of 7 Files
CLI_scripts.zip
ZIP Archive - 27.3 KB - Nov 13, 2026 - 0 Downloads
MD5: 5aaf02306d3278816ae64207a855bc7b
License: CC BY - Creative Commons Attribution 4.0
This archive contains Linux shell scripts, Windows batch scripts, and supporting Python utilities to reproduce the FcsIT correlation and fitting workflows via the TCP/JSON interface, including the calculation of the unsegmented nested-loop simulation references.
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Common_MCELL_FERNET_config_files.zip
ZIP Archive - 2.5 KB - Nov 13, 2026 - 0 Downloads
MD5: 00eedeaa8c60a380e9214b9fdf8f1de2
License: CC BY - Creative Commons Attribution 4.0
This archive contains the common MCell 3 and FERNET 1.4 configuration files used to generate the simulated fluorescence-intensity traces. These source configurations document the simulation conditions but are not required to reconstruct the figures from the deposited results.
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README.md
Unknown - 10.1 KB - Nov 13, 2026 - 0 Downloads
MD5: 7e9aee537ccfed82e67c82bc11c5ffc4
License: CC BY - Creative Commons Attribution 4.0
This file delivers the complete repository documentation, including instructions, data inventory, software requirements, processing order, analysis settings, and commands for reproducing the article analyses.
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Figures_1.zip
ZIP Archive - 293.0 KB - Nov 13, 2026 - 0 Downloads
MD5: a3cb7c48041d227097d4d6e40cc8a873
License: CC BY - Creative Commons Attribution 4.0
This archive contains the Python plotting scripts, prepared CSV summary tables, plotting metadata, and recorded package versions required to reconstruct Figures 5-8 and the corresponding supplementary figures from the completed results in Raw_data_1.
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Raw_data_1.z01
ZIP Archive - 1.5 GB - Nov 13, 2026 - 0 Downloads
MD5: 3d00a184925128542a44c1ca48f1f21f
License: CC BY - Creative Commons Attribution 4.0
File 1 of 3 of the multipart raw-data archive. It must be downloaded and kept in the same directory as Raw_data_1.z02 and Raw_data_1.zip; do not extract this part separately.
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Raw_data_1.z02
Unknown - 1.5 GB - Nov 13, 2026 - 0 Downloads
MD5: 325aff62911c9fcb1518adf6c7313fc8
License: CC BY - Creative Commons Attribution 4.0
File 2 of 3 of the multipart raw-data archive. It must be downloaded and kept in the same directory as Raw_data_1.z01 and Raw_data_1.zip; do not extract this part separately.
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Raw_data_1.zip
ZIP Archive - 655.0 MB - Nov 13, 2026 - 0 Downloads
MD5: 5753f1b33e59bdee0c1f10991ab814b0
License: CC BY - Creative Commons Attribution 4.0
File 3 of 3 is the extraction entry point for the multipart raw-data archive; extraction must be started from this file after all three parts have been downloaded to the same directory. The complete archive contains the simulated intensity traces, experimental PTU measurements, commercial-software reference results, completed FcsIT correlation and fitting outputs, nested-loop reference ACFs, and intermediate analysis files.
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