|
14 | 14 | * [Numerical Features added to Mastodon](#numerical-features-added-to-mastodon) |
15 | 15 | * [Spot Features](#spot-features) |
16 | 16 | * [Branch Features](#branch-features) |
17 | | -* [Detectors added to Mastodon](#detectors-added-to-mastodon) |
| 17 | +* [Detectors and Linkers added to Mastodon](#detectors-and-linkers-added-to-mastodon) |
18 | 18 | * [StarDist Detector](#stardist-detector) |
19 | 19 | * [Cellpose3 Detector](#cellpose3-detector) |
20 | 20 | * [Cellpose4 Detector](#cellpose4-detector) |
@@ -92,26 +92,27 @@ Mastodon Deep Lineage is an extension of Mastodon. For the full documentation of |
92 | 92 | '*' The relative movement features cannot be called from the FeatureComputer directly. Instead, they can be accessed via |
93 | 93 | the plugin menu: `Plugins > Compute Features > Movement of spots relative to nearest neighbors` |
94 | 94 |
|
95 | | -## Detectors added to Mastodon |
| 95 | +## Detectors and Linkers added to Mastodon |
96 | 96 |
|
97 | | -**It is highly recommended to use all detectors, added by Mastodon Deep Lineage, only on machines with a GPU (ideally |
98 | | -NVIDIA). The detectors are very slow on machines without a GPU. Moreover, consider running these detectors on a |
| 97 | +**It is highly recommended to use all detectors/linkers, added by Mastodon Deep Lineage, only on machines with a GPU ( |
| 98 | +ideally |
| 99 | +NVIDIA). The detectors/linkers are very slow on machines without a GPU. Moreover, consider running these detectors on a |
99 | 100 | workstation and not on a typical consumer machine for better performance.** |
100 | 101 |
|
101 | | -* The detectors added to Mastodon are actually implemented in Python. They can be used in Fiji via |
| 102 | +* The detectors/linkers added to Mastodon are actually implemented in Python. They can be used in Fiji via |
102 | 103 | the [Appose](https://apposed.org/) bridge between Java and Python. |
103 | | -* Each detector needs a specific Python runtime environment with specific dependencies. These environments are |
| 104 | +* Each detector/linker needs a specific Python runtime environment with specific dependencies. These environments are |
104 | 105 | automatically created and managed by Appose. |
105 | 106 | * There is a User Interface in Mastodon to install / update / delete these environments. The UI can be opened via |
106 | 107 | `Plugins > Tracking > Python Environments for Detection/Linking`. |
107 | 108 |  |
108 | 109 | * The dialog for managing the environments looks like |
109 | 110 | this:  |
110 | 111 | * It is recommended to use this dialog before using the detectors. However, the environments will also be installed |
111 | | - automatically when using the detectors for the first time. |
| 112 | + automatically when using the detectors/linkers for the first time. |
112 | 113 | * In both case the installation process can be monitored using the Window `Console` in Fiji which can be accessed via |
113 | 114 | `Window > Console` to monitor the progress of the installation. |
114 | | - |
| 115 | +  |
115 | 116 | * **Be aware that this installation processes may take some time and requires an internet connection. Depending on the |
116 | 117 | detector, several gigabytes of data may be downloaded and installed to your system.** |
117 | 118 |
|
|
0 commit comments