Skip to content

Update joss-paper #456

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
psomhorst merged 2 commits into from
Nov 12, 2025
Merged

Update joss-paper #456

Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
f1616a9
Add new pre-processing and visualization features, and update future …
psomhorst Nov 11, 2025
109a66e
Fix language issues (as suggested by JF)
psomhorst Nov 12, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
24 changes: 18 additions & 6 deletions paper/paper.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -103,7 +103,7 @@ international community has been invited to use and contribute to the software.
## Key features

`eitprocessing` aims to simplify and standardize loading, pre-processing, analysis and reporting
or respiration-related datasets.
of respiration-related datasets.
Notebooks demonstrating these features are available in the repository.

### Loading
Expand Down Expand Up @@ -134,11 +134,14 @@ for the first part of a measurement and prone for the second part.

`eitprocessing` currently has implementations for the following pre-processing steps:

- high-pass, low-pass, band-pass or band-stop Butterworth filters, as well as a Multiple Digital Notch filter @Wisse2024-wi;
- calculation of the global or regional impedance as the sum of the impedance of all or a subset of pixels;
- high-pass, low-pass, band-pass or band-stop Butterworth filters;
- a moving averager using convolution with a given window;
- region of interest selection using predefined or custom masks;
- functional lung space detection using the tidal impedance variation, amplitude, or the Watershed method;
- automatic detection of the start, middle (end-inspiration) and end of breaths on a
global/regional and pixel level.
global/regional and pixel level;
- automatic detection of the respiratory and heart rate from pixel impedance values.

### Analysis

Expand All @@ -147,16 +150,25 @@ for the first part of a measurement and prone for the second part.
- end-expiratory lung impedance on a global/regional and pixel level;
- tidal impedance variation on a global/regional and pixel level.

## Visualization

`eitprocessing` includes several visualization methods to simplify and standardize visual output. Examples are:

- showing pixel maps, e.g., tidal impedance variation, changes in EELI, pendelluft, etc.;
- show the effect of filtering methods in the frequency domain.

## Future perspective

`eitprocessing` is ready for use in offline analysis of EIT and respiratory related data. Our team
is actively working on expanding the features of the software.

Several features are in active development. Examples are:

- more advanced filtering methods, using a combination of Butterworth filters, empirical mode
decomposition or wavelet transforms;
- automatic detection of respiratory and heart rate from pixel impedance values.
- provenance tracking of data processing steps;
- more advanced filtering methods, e.g., empirical mode
decomposition and wavelet transforms;
- quantification of pendelluft;
- expansion of visualization methods.

Moreover, we plan to extend `eitprocessing` with standardized workflows to summarize and report
analysis results.
Expand Down