Trackrefiner: A precision tracking tool for bacillus cell tracking


Package
Meta

TrackRefiner is a post-processing tool specifically designed to refine the tracking outputs of CellProfiler, a widely used image processing tool. It improves tracking accuracy by refining segmentation and tracking outputs, pruning incorrect links, and adding missing ones. TrackRefiner combines traditional tracking methods with machine learning classifiers, requiring minimal user input while leveraging a data-driven approach to optimize results.

The general pipeline of TrackRefiner is illustrated in the following figure:

Key Commands

TrackRefiner provides both command-line tools and graphical interfaces for tracking refinement and manual editing of tracking results.
Use -h with commands to view available options.

Remove jitter from dataset images:
```
trackrefiner-jitter-remover
```
Run tracking refinement:
- Command-Line Interface:
```
trackrefiner-cli
```
- Graphical User Interface:
```
trackrefiner-gui
```
Manual editing of tracking results:

trackrefiner-track-editor

How to Use TrackRefiner

The following sections provide more details on:

Citation

If you use TrackRefiner in your research, please cite it using the following reference:

TrackRefiner: A tool for refinement of bacillus cell tracking data

Release files for TrackRefiner 1.3

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for TrackRefiner 1.3
File	Size	Uploaded
trackrefiner-1.3.tar.gz	717.2 kB	Jun 8, 2025	Details

Built distribution (wheel)

Table of built distributions (wheels) for TrackRefiner 1.3
File	Interpreter	ABI	Platform	Reset
trackrefiner-1.3-py3-none-any.whl 746.6 kB Jun 8, 2025	Python 3	none	any	Details

Total release size: 1.5 MB

Release files / trackrefiner-1.3.tar.gz

Download URL	trackrefiner-1.3.tar.gz
Size	717.2 kB
Tags	Source
SHA-256 checksum How to use checksums	`b238c2dd301a3cc5b45d063716d36b81162290b7526b62d1eca5be3855fbf56d`
BLAKE2b-256 checksum How to use checksums	`9f235c1a3515af58fa2aa4f80d79d920198c61782ddde60a648a7380ddf1a45a`
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Uploaded via	`twine/6.1.0 CPython/3.10.9`

Release files / trackrefiner-1.3-py3-none-any.whl

Download URL	trackrefiner-1.3-py3-none-any.whl
Size	746.6 kB
Tags	Python 3
SHA-256 checksum How to use checksums	`3033f9663fcd42aebaaf0294e10066e55b2b420d6bdb8a2b5abaf76e014f48fd`
BLAKE2b-256 checksum How to use checksums	`712d3ba49ba7d147978d908d56a354a26c19bd6811b7eb73766051022ff9933d`
Upload date	Jun 8, 2025
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/6.1.0 CPython/3.10.9`