Skip to content
GitLab
Menu
Projects
Groups
Snippets
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
IAH public
DeProj
Commits
bdb68f94
Commit
bdb68f94
authored
Jul 18, 2020
by
Jean-Yves TINEVEZ
Browse files
WIP: Document class properties and methods.
parent
808cf310
Changes
1
Hide whitespace changes
Inline
Side-by-side
DeProjMetrics.md
0 → 100644
View file @
bdb68f94
# DeProj metrics.
We give here the list of metrics returned by DeProj and their definition.
## The core classes: `deproj` and `epicell`.
The DeProj toolbox revolves around two MATLAB classes:
-
The
`epicell`
class is used to store the data for one cell in a tissue. It is made of several fields we describe below:
```
matlab
o
=
epicell
with
properties
:
boundary
:
[
26
×
3
single
]
center
:
[
2.4705
11.1826
3.1008
]
junction_ids
:
[
5
×
1
double
]
area
:
8.0176
perimeter
:
12.5227
euler_angles
:
[
-
2.0734
0.4195
-
0.2500
]
curvatures
:
[
0.0110
-
4.8103e-05
0.0240
-
0.0020
]
ellipse_fit
:
[
2.2284
11.1114
3.1008
2.3848
1.1178
0.4528
]
eccentricity
:
0.8834
proj_direction
:
1.2539
uncorrected_area
:
7.3173
uncorrected_perimeter
:
12.1116
id
:
4
```
-
The
`deproj`
class manages a collection of
`epicell`
s, and represent for instance the results of the analysis of a whole image.
```
matlab
dpr
=
deproj
with
properties
:
epicells
:
[
426
×
1
epicell
]
junction_graph
:
[
1
×
1
graph
]
units
:
'µm'
```
## The `epicell` class properties.
### `boundary`
The
`boundary`
property stores a 3D polygon that delimits the cell. It is represented as a
`N x 3`
matrix, with points sorted
## The `deproj` class properties.
\ No newline at end of file
Write
Preview
Markdown
is supported
0%
Try again
or
attach a new file
.
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment