---
name: "TimeSCCAN"
section: "1"
platform: "linux"
package: "ants"
version: "2.1.0-5"
release: "Debian 9 (Stretch)"
platforms: ["linux"]
url: "https://new.carta.tech/TimeSCCAN"
---

# TimeSCCAN(1)

part of ANTS registration suite

## NAME

TimeSCCAN - part of ANTS registration suite

## DESCRIPTION

### COMMAND:

-

  TimeSCCAN

-

  A tool for sparse statistical analysis on connectivity within a subject :

### OPTIONS:

**-h**

-

  Print the help menu (short version).

**--help**

-

  Print the help menu (long version). \<VALUES\>: 1

**-o**, **--output** outputImage

-

  Output is a 2D correlation matrix.

**-l**, **--number-consecutive-labels** 0

-

  Number of consecutive labels in data

**-R**, **--minimum-region-size** 1

-

  Minimum size of a region: regions below this size are given a 0.0 connectivity value

**-i**, **--iterations** 20

-

  Number of iterations

**-s**, **--sparsity** 0.10

-

  Sparsity - a float from (0,1\] indicating what fraction of the data to use

**-n**, **--n\_eigenvectors** 2

-

  Number of permutations to use in scca.

**-r**, **--robustify** 0

-

  rank-based scca

**-l**, **--l1** 0

-

  use l1 ( \> 0 ) or l0 ( \< 0 ) penalty, also sets gradient step size e.g. **-l** 0.5 ( L1 ) , **-l** **-0**.5 (L0) will set 0.5 grad descent step for either penalty

**--ClusterThresh** 1

-

  cluster threshold on view P

**-e**, **--ridge\_cca** 0

-

  Number of permutations to use in scca.

**--partial-scca-option** PminusRQ

-

  Choices for pscca: PQ, PminusRQ, PQminusR, PminusRQminusR

**--timeseriesimage-to-matrix** \[four\_d\_image.nii.gz,three\_d\_mask.nii.gz\]

-

  takes a timeseries (4D) image and converts it to a 2D matrix csv format as output.If the mask has multiple labels ( more the one ) then the average time series in each label will be computed and put in the csv.

**--labelsimage-to-matrix** \[three\_d\_mask.nii.gz\]

-

  takes a labeled (3D) image and converts it to a 2D matrix csv format as output.

**--network** scca\[time-matrix.mhd,label-matrix.mhd\]

-

  region-averaging\[time-matrix.mhd,label-matrix.mhd\]

-

  Build the network connectivity matrix