# Alpha complex

## alpha_complex_persistence

This program computes the persistent homology with coefficient field Z/pZ of the dD alpha complex built from a dD point cloud. The output diagram contains one bar per line, written with the convention:

```
p dim birth death
```

where `dim`

is the dimension of the homological feature, `birth`

and `death`

are respectively the birth and death of the feature, and `p`

is the
characteristic of the field *Z/pZ* used for homology coefficients (`p`

must be
a prime number).

**Usage**

```
alpha_complex_persistence [options] <input OFF file>
```

where
`<input OFF file>`

is the path to the input point cloud in
nOFF ASCII format.

**Allowed options**

`-h [ --help ]`

Produce help message`-o [ --output-file ]`

Name of file in which the persistence diagram is written. Default print in standard output.`-r [ --max-alpha-square-value ]`

(default = inf) Maximal alpha square value for the Alpha complex construction.`-p [ --field-charac ]`

(default = 11) Characteristic p of the coefficient field Z/pZ for computing homology.`-m [ --min-persistence ]`

(default = 0) Minimal lifetime of homology feature to be recorded. Enter a negative value to see zero length intervals.`-w [ --weight-file ]`

is the path to the file containing the weights of the points (one value per line). Default version is not weighted.`-e [ --exact ]`

for the exact computation version.`-f [ --fast ]`

for the fast computation version.

**Example**

```
alpha_complex_persistence -r 32 -p 2 -m 0.45 ../../data/points/tore3D_300.off
```

N.B.:

- Filtration values are alpha square values.
- Weights values are explained on CGAL dD Triangulations and Regular triangulation documentation.

## alpha_complex_3d_persistence

This program computes the persistent homology with coefficient field Z/pZ of the 3D alpha complex built from a 3D point cloud. One can use exact computation. It is slower, but it is necessary when points are on a grid for instance. Alpha complex 3d can be weighted and/or periodic (refer to the CGAL’s 3D Periodic Triangulations User Manual for more details).

The output diagram contains one bar per line, written with the convention:

```
p dim birth death
```

where `dim`

is the dimension of the homological feature, `birth`

and `death`

are respectively the birth and death of the feature, and `p`

is the
characteristic of the field *Z/pZ* used for homology coefficients (`p`

must be
a prime number).

**Usage**

```
alpha_complex_3d_persistence [options] <input OFF file>
```

where `<input OFF file>`

is the path to the input point cloud in
nOFF ASCII format.

**Allowed options**

`-h [ --help ]`

Produce help message`-o [ --output-file ]`

Name of file in which the persistence diagram is written. Default print in standard output.`-r [ --max-alpha-square-value ]`

(default = inf) Maximal alpha square value for the Alpha complex construction.`-p [ --field-charac ]`

(default=11) Characteristic p of the coefficient field Z/pZ for computing homology.`-m [ --min-persistence ]`

(default = 0) Minimal lifetime of homology feature to be recorded. Enter a negative value to see zero length intervals.`-c [ --cuboid-file ]`

is the path to the file describing the periodic domain. It must be in the format described here. Default version is not periodic.`-w [ --weight-file ]`

is the path to the file containing the weights of the points (one value per line). Default version is not weighted.`-e [ --exact ]`

for the exact computation version (not compatible with weight and periodic version).`-f [ --fast ]`

for the fast computation version.

**Example**

```
alpha_complex_3d_persistence ../../data/points/tore3D_300.off -p 2 -m 0.45
```

N.B.:

`alpha_complex_3d_persistence`

only accepts OFF files in dimension 3.- Filtration values are alpha square values.
- Weights values are explained on CGAL Alpha shape and Regular triangulation documentation.