phasorpy 0.9__tar.gz → 0.11__tar.gz

{phasorpy-0.9 → phasorpy-0.11}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: phasorpy
-Version: 0.9
+Version: 0.11
 Summary: Analysis of luminescence lifetime and hyperspectral images using the phasor approach
 Author: PhasorPy Contributors
 License-Expression: MIT
@@ -10,7 +10,7 @@ Project-URL: Download, https://pypi.org/project/phasorpy/#files
 Project-URL: Source code, https://github.com/phasorpy/phasorpy
 Project-URL: Issue tracker, https://github.com/phasorpy/phasorpy/issues
 Project-URL: Release notes, https://www.phasorpy.org/docs/stable/release
-Classifier: Development Status :: 3 - Alpha
+Classifier: Development Status :: 4 - Beta
 Classifier: Intended Audience :: Developers
 Classifier: Intended Audience :: Science/Research
 Classifier: Programming Language :: Python
@@ -24,30 +24,45 @@ Classifier: Programming Language :: Python :: 3.14
 Requires-Python: >=3.12
 Description-Content-Type: text/markdown
 License-File: LICENSE.txt
-Requires-Dist: numpy>=2.0.0
+Requires-Dist: numpy>=2.1.0
 Requires-Dist: matplotlib>=3.9.0
-Requires-Dist: pandas>=2.2.0
+Requires-Dist: pandas>=2.3.0
 Requires-Dist: scikit-learn>=1.5.0
-Requires-Dist: scipy>=1.13.0
-Requires-Dist: tifffile>=2024.8.30
+Requires-Dist: scipy>=1.14.0
+Requires-Dist: tifffile>=2026.5.2
 Requires-Dist: xarray>=2024.6.0
 Requires-Dist: click
 Requires-Dist: pooch
 Requires-Dist: tqdm
 Provides-Extra: all
+Requires-Dist: czifile>=2026.4.11; extra == "all"
 Requires-Dist: fbdfile>=2025.9.18; extra == "all"
-Requires-Dist: lfdfiles>=2024.5.24; extra == "all"
+Requires-Dist: lfdfiles>=2026.4.30; extra == "all"
 Requires-Dist: liffile>=2025.2.10; extra == "all"
 Requires-Dist: ptufile>=2024.9.14; extra == "all"
 Requires-Dist: sdtfile>=2024.5.24; extra == "all"
 Requires-Dist: pawflim>=1.0.4; extra == "all"
+Requires-Dist: imagecodecs==2026.6.6; (sys_platform == "darwin" and platform_machine == "x86_64") and extra == "all"
 Dynamic: license-file
 
-# <img src="docs/_static/phasorpy_logo.svg" alt="PhasorPy" width="48" height="48" align="left"> PhasorPy
+# <img src="https://www.phasorpy.org/_static/phasorpy_logo.svg" alt="&#x25CB;" width="48" height="48" align="left"/> PhasorPy
 
 PhasorPy is an open-source Python library for the analysis of luminescence
 lifetime and hyperspectral images using the phasor approach.
 
+The phasor approach represents time-resolved and spectral signals as
+phasor coordinates (normalized Fourier coefficients at harmonic frequencies)
+for intuitive visualization and analysis.
+
+PhasorPy enables reproducible phasor-based fluorescence lifetime imaging
+(FLIM) and hyperspectral imaging (HSI) workflows in scientific Python.
+It provides tools to read microscopy data in many file formats and to
+calculate, calibrate, filter, visualize, and interconvert phasor coordinates,
+lifetimes, and signals. Phasor coordinates can be exported to standard
+formats and analyzed through cursor-based region-of-interest selection,
+cluster detection, multi-component unmixing, FRET efficiency and concentration
+estimation.
+
 - [Homepage](https://www.phasorpy.org)
 - [Documentation](https://www.phasorpy.org/docs/stable/)
 - [Source code](https://github.com/phasorpy/phasorpy)

{phasorpy-0.9 → phasorpy-0.11}/README.md

@@ -1,8 +1,21 @@
-# <img src="docs/_static/phasorpy_logo.svg" alt="PhasorPy" width="48" height="48" align="left"> PhasorPy
+# <img src="https://www.phasorpy.org/_static/phasorpy_logo.svg" alt="&#x25CB;" width="48" height="48" align="left"/> PhasorPy
 
 PhasorPy is an open-source Python library for the analysis of luminescence
 lifetime and hyperspectral images using the phasor approach.
 
+The phasor approach represents time-resolved and spectral signals as
+phasor coordinates (normalized Fourier coefficients at harmonic frequencies)
+for intuitive visualization and analysis.
+
+PhasorPy enables reproducible phasor-based fluorescence lifetime imaging
+(FLIM) and hyperspectral imaging (HSI) workflows in scientific Python.
+It provides tools to read microscopy data in many file formats and to
+calculate, calibrate, filter, visualize, and interconvert phasor coordinates,
+lifetimes, and signals. Phasor coordinates can be exported to standard
+formats and analyzed through cursor-based region-of-interest selection,
+cluster detection, multi-component unmixing, FRET efficiency and concentration
+estimation.
+
 - [Homepage](https://www.phasorpy.org)
 - [Documentation](https://www.phasorpy.org/docs/stable/)
 - [Source code](https://github.com/phasorpy/phasorpy)

{phasorpy-0.9 → phasorpy-0.11}/docs/_static/switcher.json

@@ -1,23 +1,23 @@
 [
   {
     "name": "dev",
-    "version": "0.10",
+    "version": "0.12",
     "url": "https://www.phasorpy.org/docs/dev/"
   },
   {
-    "name": "0.9 (stable)",
-    "version": "0.9",
+    "name": "0.11 (stable)",
+    "version": "0.11",
     "url": "https://www.phasorpy.org/docs/stable/",
     "preferred": true
   },
   {
-    "name": "0.8",
-    "version": "0.8",
-    "url": "https://www.phasorpy.org/docs/v0.8/"
+    "name": "0.10",
+    "version": "0.10",
+    "url": "https://www.phasorpy.org/docs/v0.10/"
   },
   {
-    "name": "0.7",
-    "version": "0.7",
-    "url": "https://www.phasorpy.org/docs/v0.7/"
+    "name": "0.9",
+    "version": "0.9",
+    "url": "https://www.phasorpy.org/docs/v0.9/"
   }
 ]

{phasorpy-0.9 → phasorpy-0.11}/docs/acknowledgments.rst

@@ -8,14 +8,14 @@ at the University of the Republic and Institut Pasteur de Montevideo, and the
 at the University of California, Irvine.
 
 PhasorPy was inspired by the
-`Globals for Images · SimFCS <https://www.lfd.uci.edu/globals/>`_ software by
+`Globals for Images - SimFCS <https://www.lfd.uci.edu/globals/>`_ software by
 Enrico Gratton.
 
-This software project was supported in part by the
+This project was supported in part by the
 `Essential Open Source Software for Science (EOSS)
 <https://chanzuckerberg.com/eoss/>`_ program at
 `Chan Zuckerberg Initiative <https://chanzuckerberg.com/>`_
-(grant number 2022-252604, 2022-2024).
+(grant number 2022-252604; 2022-2024).
 
 .. _contributors:
 
@@ -32,7 +32,7 @@ and
 User Community
 --------------
 
-Many thanks to the PhasorPy user community for their feedback, bug reports,
+Thanks to the PhasorPy user community for their feedback, bug reports,
 feature suggestions, and data files that have helped improve the library.
 
 Citation

{phasorpy-0.9 → phasorpy-0.11}/docs/api/index.rst

@@ -5,8 +5,8 @@ This documents the application programming and command-line interfaces of
 the PhasorPy library version |version|.
 
 .. note::
-    The PhasorPy library is still under construction. Backwards-incompatible
-    changes may occur between revisions.
+    PhasorPy is still under active development, and changes in new releases
+    may require updates to existing code.
 
 .. toctree::
     :maxdepth: 3

{phasorpy-0.9 → phasorpy-0.11}/docs/conf.py

@@ -13,6 +13,7 @@ sys.path.insert(0, os.path.dirname(__file__))
 
 # remove the examples header from HTML tutorials
 import sphinx_gallery.gen_rst
+from sphinx_gallery.sorting import ExplicitOrder
 
 sphinx_gallery.gen_rst.EXAMPLE_HEADER = (
     sphinx_gallery.gen_rst.EXAMPLE_HEADER.replace(
@@ -63,8 +64,9 @@ exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']
 # html_theme = 'sphinx_rtd_theme'
 html_theme = 'pydata_sphinx_theme'
 html_static_path = ['_static']
-html_js_files = ['custom-icons.js']
+html_js_files = [('custom-icons.js', {'defer': 'defer'})]
 html_show_sourcelink = False
+html_sidebars = {'**': ['sidebar-nav-bs']}
 
 html_title = f'PhasorPy {version} documentation'
 html_logo = '_static/phasorpy_logo.svg'
@@ -129,6 +131,13 @@ sphinx_gallery_conf = {
     'filename_pattern': 'phasorpy_',
     'examples_dirs': '../tutorials',
     'gallery_dirs': 'tutorials',
+    'subsection_order': ExplicitOrder(
+        [
+            '../tutorials/applications',
+            '../tutorials/api',
+            '../tutorials/misc',
+        ]
+    ),
     'reference_url': {'phasorpy': None},
     'matplotlib_animations': True,
     'within_subsection_order': 'conf.TutorialOrder',
@@ -150,21 +159,23 @@ class TutorialOrder:
         'introduction',
         'lifetime_geometry',
         'lfd_workshop',
+        # applications
+        'component_fit',
+        'fret_efficiency',
+        'nadh_fraction',
+        'nadh_concentration',
+        'multidimensional',
         # api
         'io',
+        'lifetime_to_signal',
         'phasor_from_lifetime',
-        'multi_harmonic',
+        'fret',
         'filter',
+        'multi_harmonic',
         'phasorplot',
         'cursor',
         'component',
-        'fret',
-        'lifetime_to_signal',
         'pca',
-        # applications
-        'component_fit',
-        'fret_efficiency',
-        'multidimensional',
         # misc
         'logo',
         'apps',

{phasorpy-0.9 → phasorpy-0.11}/docs/contributing.rst

@@ -4,7 +4,7 @@ Contributing guide
 As a community-maintained project, PhasorPy welcomes contributions in the form
 of bug reports, bug fixes, feature implementations, documentation, datasets,
 and enhancement proposals.
-This document provides information on how to contribute.
+This guide explains how to contribute.
 
 The :doc:`code_of_conduct` applies to everyone participating in the
 PhasorPy community.
@@ -74,13 +74,13 @@ a GitHub repository at
 `https://github.com/phasorpy/phasorpy <https://github.com/phasorpy/phasorpy>`_.
 
 The repository is based on `git <https://git-scm.com/>`_, a distributed
-version control software for tracking changes in the source code files and for
+version control system for tracking changes in source code files and for
 coordinating work among programmers collaboratively developing the code.
 
 PhasorPy uses GitHub's `fork and pull collaborative development model
 <https://docs.github.com/en/pull-requests/collaborating-with-pull-requests>`_.
 All contributions to the PhasorPy source code and documentation should
-be developed in personal forks/copies of the code, and then submitted as
+be developed in personal forks of the repository, and then submitted as
 `pull requests <https://github.com/phasorpy/phasorpy/pulls>`_ (PRs).
 
 The PhasorPy project loosely follows the
@@ -203,9 +203,8 @@ static type checker::
 
     $ python -m mypy
 
-
 The PhasorPy project follows the Scientific Python
-`SPEC 0 — Minimum Supported Dependencies
+`SPEC 0 - Minimum Supported Dependencies
 <https://scientific-python.org/specs/spec-0000/>`_ recommendation
 for Python, NumPy, and other dependencies.
 
@@ -219,7 +218,7 @@ following the `numpydoc
 standard.
 
 Examples in docstrings must run and pass as
-`doctests <https://docs.python.org/3/library/doctest.html>`_ ::
+`doctests <https://docs.python.org/3/library/doctest.html>`_::
 
     $ python -m pytest -v src/phasorpy
 
@@ -232,7 +231,7 @@ to generate the documentation in HTML format published at
 
 Sphinx documentation is written in the
 `reStructuredText <https://docutils.sourceforge.io/rst.html>`_
-markup language in the .rst files in the ``docs`` and ``tutorials`` folders.
+markup language in .rst files in the ``docs`` and ``tutorials`` folders.
 
 All user-facing classes and functions should be included in the
 ``docs/api/*.rst`` files.
@@ -251,8 +250,8 @@ Examples in the .rst files must run and pass as doctests::
 
     $ python -m pytest -v docs
 
-Documentation in HTML format can be built from the docstrings, .rst,
-and tutorial files by running::
+Documentation can be built in HTML format from docstrings, .rst files,
+and tutorials by running::
 
     $ cd docs
     $ make clean
@@ -263,7 +262,7 @@ Then open ``_build/html/index.html`` in a web browser.
 Commit the changes
 ..................
 
-Commit changed and new files to the local repository::
+Commit modified and new files to the local repository::
 
     $ git add phasorpy/new_file.py
     $ git commit -a -m "Summarize changes in 50 characters or less"

{phasorpy-0.9 → phasorpy-0.11}/docs/index.rst

@@ -2,13 +2,13 @@
 PhasorPy documentation
 ======================
 
-Welcome to the documentation of PhasorPy version |version|.
+Welcome to the documentation for PhasorPy version |version|.
 
 PhasorPy is an open-source Python library for the analysis of luminescence
 lifetime and hyperspectral images using the :doc:`phasor_approach`.
 
-Quickstart
-==========
+Project guide
+=============
 
 The :doc:`tutorials/index` demonstrate how to use the library, from simple
 examples to advanced applications.
@@ -16,8 +16,8 @@ examples to advanced applications.
 The :doc:`api/index` contains detailed information about all functions and
 classes of the library.
 
-The :doc:`release/index` list recent bug fixes, feature enhancements, documentation,
-and maintenance changes.
+The :doc:`release/index` list recent bug fixes, feature enhancements,
+documentation, and maintenance changes.
 
 The :doc:`contributing` explains how to get support, report bugs,
 submit fixes, and improve the documentation.
@@ -44,7 +44,7 @@ Sample data files used in tutorials and testing are available from the
 Report issues with the code or documentation on the
 `issue tracker on GitHub <https://github.com/phasorpy/phasorpy/issues>`_.
 
-Questions about the usage of the PhasorPy library are answered on the
+Questions about using the PhasorPy library can be asked on the
 `issue tracker on GitHub <https://github.com/phasorpy/phasorpy/issues>`_.
 
 Please cite

{phasorpy-0.9 → phasorpy-0.11}/docs/phasor_approach.rst

@@ -1,14 +1,14 @@
-Phasor approach
+Phasor approach
 ===============
 
-“The phasor approach to fluorescence lifetime imaging, and more recently
+"The phasor approach to fluorescence lifetime imaging, and more recently
 hyperspectral fluorescence imaging, has increased the use of these
 techniques, and improved the ease and intuitiveness of the data analysis.
 The fit-free nature of the phasor plots increases the speed of the analysis
 and reduces the dimensionality, optimization of data handling and storage.
-The reciprocity principle between the real and imaginary space—where the
+The reciprocity principle between the real and imaginary space--where the
 phasor and the pixel that the phasor originated from are linked and can be
-converted from one another—has helped the expansion of this method.
+converted from one another--has helped the expansion of this method.
 The phasor coordinates calculated from a pixel, where multiple fluorescent
 species are present, depends on the phasor positions of those components.
 The relative positions are governed by the linear combination properties of
@@ -21,7 +21,7 @@ the total fluorescence from that image pixel.
 The higher the fractional intensity contribution of a vertex, the closer is
 the resultant phasor. The linear additivity in the phasor space can be
 exploited to obtain the fractional intensity contribution from multiple
-species and quantify their contribution.”
+species and quantify their contribution."
 (quoted from :ref:`Malacrida et al., 2021 <malacrida-2021>`)
 
 The following resources provide an overview of the history, theory,
@@ -140,23 +140,45 @@ Articles
 Software
 --------
 
-Besides the PhasorPy library, several other software implemented the phasor
-approach to analyze fluorescence time-resolved or spectral images:
+Several software packages implement the phasor approach for analyzing
+luminescence time-resolved or spectral images:
 
 .. list-table::
    :header-rows: 0
 
+   * - **Library**
+     - :ref:`PhasorPy <phasorpy>`,
+       :ref:`tttrlib <tttrlib>`,
+       :ref:`FLIMLib <flimlib>`:sup:`2`,
+       :ref:`BrightEyes <brighteyes>`:sup:`2`,
+       :ref:`FLIM_tools <flim_tools>`:sup:`2,4`,
+       :ref:`Cell-analysis-tools <cell_analysis_tools>`:sup:`2,4`
    * - **Desktop**
-     - :ref:`SimFCS <simfcs>`,
+     - :ref:`SimFCS <simfcs>`:sup:`3,4`,
+       :ref:`FLIM Playground <flim_playground>`:sup:`1`,
        :ref:`FLUTE <flute>`,
        :ref:`FLIMPA <flimpa>`,
        :ref:`GSLab <gslab>`,
        :ref:`AlliGator <alligator>`,
-       :ref:`BrightEyes <brighteyes>`,
-       :ref:`FLIM Playground <flim_playground>`,
-       :ref:`HySP <hysp>`,
-       :ref:`FlimFast <flimfast>`
-   * - **Commercial**
+       :ref:`HySP <hysp>`:sup:`3,4`,
+       :ref:`FlimFast <flimfast>`:sup:`3,4`
+   * - **Napari**
+     - :ref:`Napari-phasors <napari_phasors>`:sup:`1`,
+       :ref:`FLIMari <flimari>`:sup:`1`,
+       :ref:`Napari-flim-phasor-plotter <napari_flim_phasor_plotter>`,
+       :ref:`FLOPA <flopa>`:sup:`2`,
+       :ref:`Napari-live-flim <napari_live_flim>`:sup:`2,4`
+   * - **ImageJ**
+     - :ref:`Spectral/Time Gated Phasor PlugIns <phasor_plugins>`:sup:`4`
+   * - **Notebook**
+     - :ref:`PhasorAnalysis <phasor_analysis>`,
+       :ref:`PhasorIdentifier <phasor_identifier>`:sup:`4`,
+       :ref:`PhasorPlots for dummies <phasorplots_for_dummies>`:sup:`2,4`
+   * - **Matlab**
+     - :ref:`FLIMfit <flimfit>`:sup:`2`,
+       :ref:`PAM <pam>`:sup:`2`,
+       :ref:`Instant-FLIM-Analysis <instant_flim_analysis>`:sup:`4`
+   * - **Commercial**:sup:`3`
      - :ref:`FLIM Studio <flim_studio>`,
        :ref:`VistaVision <vistavision>`,
        :ref:`SPCImage <spcimage>`,
@@ -164,38 +186,38 @@ approach to analyze fluorescence time-resolved or spectral images:
        :ref:`Luminosa <luminosa>`,
        :ref:`EzTime <eztime>`,
        :ref:`LIFA <lifa>`
-   * - **Napari**
-     - :ref:`Napari-phasors <napari_phasors>`,
-       :ref:`Napari-flim-phasor-plotter <napari_flim_phasor_plotter>`,
-       :ref:`Napari-live-flim <napari_live_flim>`,
-       :ref:`FLOPA <flopa>`
-   * - **ImageJ**
-     - :ref:`Spectral/Time Gated Phasor PlugIns <phasor_plugins>`
-   * - **Matlab**
-     - :ref:`FLIMfit <flimfit>`,
-       :ref:`PAM <pam>`,
-       :ref:`Instant-FLIM-Analysis <instant_flim_analysis>`
-   * - **Library**
-     - :ref:`FLIMLib <flimlib>`,
-       :ref:`tttrlib <tttrlib>`,
-       :ref:`FLIM_tools <flim_tools>`,
-       :ref:`Cell-analysis-tools <cell_analysis_tools>`
-   * - **Notebook**
-     - :ref:`PhasorIdentifier <phasor_identifier>`,
-       :ref:`PhasorPlots for dummies <phasorplots_for_dummies>`
+
+| :sup:`1` Uses PhasorPy internally.
+| :sup:`2` GPL-licensed.
+| :sup:`3` Proprietary or closed-source.
+| :sup:`4` Legacy: no known maintenance activity for at least 2 years.
 
 Details:
 
+-
+  .. _phasorpy:
+
+  `PhasorPy <https://github.com/phasorpy/phasorpy/>`__
+  is an open-source Python library for the analysis of luminescence lifetime
+  and hyperspectral images using the phasor approach.
+  The library enables reproducible phasor-based FLIM and HSI workflows.
+  It provides tools to read microscopy data in many file formats and to
+  calculate, calibrate, filter, visualize, and interconvert phasor coordinates,
+  lifetimes, and signals. Phasor coordinates can be exported to standard
+  formats and analyzed through cursor-based region-of-interest selection,
+  cluster detection, multi-component unmixing, FRET efficiency and
+  concentration estimation.
+  It is distributed under the permissive MIT license.
+
 -
   .. _simfcs:
 
-  `Globals for Images · SimFCS <https://www.lfd.uci.edu/globals/>`__
+  `Globals for Images - SimFCS <https://www.lfd.uci.edu/globals/>`__
   is a free, closed-source, Windows desktop application for fluorescence image
   analysis, visualization, simulation, and acquisition.
   The software was developed by Enrico Gratton during 1998-2022 at the
-  Laboratory for Fluorescence Dynamics. It provides the most comprehensive
-  set of features for phasor analysis of fluorescence lifetime and
-  hyperspectral images.
+  Laboratory for Fluorescence Dynamics. It provides a broad set of features
+  for phasor analysis of fluorescence lifetime and hyperspectral images.
   Many `tutorials <https://www.lfd.uci.edu/globals/tutorials/>`__ are
   available.
 
@@ -225,9 +247,17 @@ Details:
   .. _flopa:
 
   `FLOPA <https://github.com/IMCF-Biocev/FLOPA>`__
-  is a napari plugin for FLIM data opening, processing and analysis.
+  is a napari plugin for FLIM data opening, processing, and analysis.
   The plugin is distributed under the GPLv3 license.
 
+-
+
+  .. _flimari:
+
+  `FLIMari <https://github.com/GuangchenW/FLIMari>`__
+  is a napari plugin for FLIM analysis. It provides an interactive,
+  phasor-based lifetime visualization and analysis pipeline.
+  The plugin is distributed under the MIT license.
 -
   .. _hysp:
 
@@ -248,7 +278,7 @@ Details:
   .. _flimpa:
 
   `FLIMPA <https://github.com/SofiaKapsiani/FLIMPA>`__
-  is an open-source GUI software designed for the phasor plot analysis of
+  is an open-source GUI application designed for phasor-plot analysis of
   raw TCSPC-FLIM data. The software is written in Python and distributed
   under the BSD-3-Clause license.
 
@@ -275,7 +305,7 @@ Details:
   is a collection of open-source software for the acquisition, analysis,
   and simulation of image-scanning microscopy data, including FLIM-phasor
   analysis of time-resolved images. The software is written in Python/VHDL
-  by the lab of Giuseppe Vicidomini and distributed under the GPL3 license.
+  by the lab of Giuseppe Vicidomini and distributed under the GPL v3 license.
 
 -
   .. _flim_playground:
@@ -292,7 +322,7 @@ Details:
   `FLIM_tools <https://github.com/jayunruh/FLIM_tools>`__
   is an open-source Python library for linear unmixing and phasor tools for
   FLIM analysis developed by Jay Unruh. The library is distributed under
-  the GPL2 license.
+  the GPL v2 license.
 
 -
   .. _tttrlib:
@@ -303,6 +333,14 @@ Details:
   and correcting phasor coordinates. The library is distributed under the
   BSD license.
 
+-
+  .. _phasor_analysis:
+
+  `PhasorAnalysis <https://zenodo.org/records/15616954>`__
+  is a Jupyter notebook for the PhasorScope project, an open, integrated
+  platform for multiplexed bioluminescence microscopy. The notebook is
+  designed to run on Google Colab and is distributed under the MIT license.
+
 -
   .. _phasor_identifier:
 
@@ -314,9 +352,9 @@ Details:
 -
   .. _phasor_plugins:
 
-  `Spectral Phasor PlugIn <http://spechron.com/Spectral%20Phasor-Download.aspx>`__
+  `Spectral Phasor PlugIn <https://web.archive.org/web/20250621131318/http://spechron.com/Spectral%20Phasor-Introduction.aspx>`__
   and
-  `Time Gated Phasor PlugIn <http://spechron.com/Time%20gated%20Phasor-Download.aspx>`__
+  `Time Gated Phasor PlugIn <https://web.archive.org/web/20240910041344/http://spechron.com/Time%20gated%20Phasor%20Introduction.aspx>`__
   are open-source ImageJ plugins by Farzad Fereidouni, which provide
   visualization, segmentation, and unmixing of time-resolved and spectral
   images using the phasor approach. The software is distributed under an
@@ -341,7 +379,7 @@ Details:
   .. _flimfit:
 
   `FLIMfit <https://github.com/flimfit/FLIMfit>`__ is an open-source,
-  MATLAB-based tool to analyse and visualize time-resolved data from FLIM
+  MATLAB-based tool to analyze and visualize time-resolved data from FLIM
   measurements including TCSPC and wide-field time-gated imaging.
   It includes a segmentation tool based on the phasor approach.
   The affiliated `FlimReader <https://github.com/flimfit/FlimReader>`__
@@ -353,7 +391,7 @@ Details:
 
   `PAM <https://pam.readthedocs.io/en/latest/phasor.html>`__
   is an open-source GUI-based MATLAB package for the analysis of fluorescence
-  experiments. The phasor analysis includes region of interests, fractions,
+  experiments. The phasor analysis includes regions of interest, fractions,
   triangular mixtures, and FRET estimation. PAM is licensed under the GPL v3.
 
 -
@@ -376,7 +414,7 @@ Details:
   .. _flim_studio:
 
   `FLIM Studio <https://www.flimlabs.com/software/>`__
-  is a commercial software by FLIM LABS, a vendor of portable devices for
+  is commercial software by FLIM LABS, a vendor of portable devices for
   fluorescence lifetime imaging and spectroscopy. The software provides
   real-time FLIM phasor-plot analysis, AI-driven phasor-plot analysis
   techniques, and an application programming interface. Python modules
@@ -386,7 +424,7 @@ Details:
   .. _vistavision:
 
   `VistaVision <https://iss.com/software/vistavision>`__
-  is a commercial Windows desktop software by ISS, Inc., for confocal
+  is a commercial Windows desktop application by ISS, Inc., for confocal
   microscopy applications, including instrument control, data acquisition,
   and data processing. It performs image segmentation of FLIM images via
   the phasor plot.
@@ -395,7 +433,7 @@ Details:
   .. _spcimage:
 
   `SPCImage <https://www.becker-hickl.com/literature/documents/flim/spcimage-ng/>`__
-  is a commercial Windows desktop software by Becker & Hickl (tm) for
+  is a commercial Windows desktop application by Becker & Hickl (tm) for
   TCSPC-FLIM data analysis. It performs image segmentation of time-resolved
   data via the phasor plot.
 
@@ -403,24 +441,24 @@ Details:
   .. _lasx:
 
   `LAS X <https://www.leica-microsystems.com/science-lab/phasor-analysis-for-flim-fluorescence-lifetime-imaging-microscopy/>`__
-  is a commercial Windows desktop software by Leica Microsystems.
-  The software allows, by using phasors, to follow microenvironmental changes,
-  select components to multiplex signal, and determine FRET efficiency.
+  is a commercial Windows desktop application by Leica Microsystems.
+  The software uses phasors to track microenvironmental changes,
+  select components for signal multiplexing, and determine FRET efficiency.
 
 -
   .. _luminosa:
 
   `Luminosa <https://www.picoquant.com/products/category/fluorescence-microscopes/luminosa-single-photon-counting-confocal-microscope#documents>`__
-  is a commercial Windows desktop software by PicoQuant GmbH, which includes
+  is a commercial Windows desktop application by PicoQuant GmbH, which includes
   single molecule detection, FCS, and time-resolved imaging methods.
-  The InstaFLIM module allows simultaneous TCSPC and phasor analysis
-  options for ROI determination.
+  The InstaFLIM module supports simultaneous TCSPC and phasor analysis
+  for ROI determination.
 
 -
   .. _eztime:
 
   `EzTime <https://www.horiba.com/int/scientific/products/detail/action/show/Product/eztime-software-6283/>`__
-  is a commercial software by HORIBA Scientific. It allows real-time TCSPC
+  is commercial software by HORIBA Scientific. It allows real-time TCSPC
   image analysis and visualization, including phasor plots, in conjunction
   with the FLIMera wide-field camera.
 
@@ -428,14 +466,37 @@ Details:
   .. _lifa:
 
   `LIFA <https://lambertinstruments.com/lifa-software>`__
-  is a commercial software by Lambert Instruments to record and analyze
+  is commercial software by Lambert Instruments to record and analyze
   fluorescence lifetime images, integrating all Lambert hardware.
 
 -
   .. _flimfast:
 
   `FlimFast <https://www.cgohlke.com/flimfast/>`__
-  was a research-grade Windows desktop software for frequency-domain,
+  was a research-grade Windows desktop application for frequency-domain,
   full-field, fluorescence lifetime imaging at video rate, developed by
   Christoph Gohlke during 2000-2002 at UIUC. It enabled phasor vs intensity
   plots of FLIM images during real-time acquisition.
+
+The following software packages are related to FLIM analysis but are primarily
+fitting-based and therefore not included in the phasor-focused list above:
+
+-
+  .. _flimj:
+
+  `FLIMJ <https://flimj.github.io/>`__
+  is an open-source ImageJ toolkit for fluorescence lifetime image data
+  analysis based on FLIMLib, licensed under the GPL v3.
+
+-
+  .. _flimx:
+
+  `FLIMX <https://github.com/M-Klemm/FLIMX/>`__
+  is an open-source MATLAB package to determine and analyze the fluorescence
+  lifetime in time-resolved fluorescence data.
+
+-
+  .. _flimview:
+
+  `FLIMVIEW <https://github.com/mgckind/flimview>`__ is an open-source,
+  lightweight Python package for FLIM image processing.