Description Usage Arguments Details Value See Also
'extractStructure' detects the format of the structure file and extract the structure of the network. It expects a matrix with 2 or 3 columns (adjacency list) or a square matrix (adjacency matrix)
'extractBasalActivity' detects if the a list of names or a file perform the extraction if necessary. It expects a vector or an object convertible to a vector.
'extractMIDAS' detects if the argument is a MIDAS dataset or the name of a file containing such dataset. It expects a matrix in MIDAS format (See Details).
1 2 3 4 5 | extractStructure(to_detect, names = "", adj = FALSE)
extractBasalActivity(to_detect)
extractMIDAS(to_detect)
|
to_detect |
An object to check or a string. A string is interpreted as a path to a file containing a matrix compatible with the target object. |
adj |
Boolean, whether a 2 or 3 columns matrix in to_detect should be interpreted as an adjacency matrix |
name |
Name for the structure. Extracted automatically from the file name if used. |
A MIDAS format matrix is a matrix with specific column names:
One column 'ID:type' containing the type of experiment of each row:
'c' or 'control' for control experiment with no treatment
'blank' for blank experiment with no treatment
't' for experiment with a treatment
At least one column 'TR:STIMULATION' or 'TR:INHIBITIONi' containing 0 or 1 whether the perturbation is applied for the experiment in each row
One column 'DA:all' or the relevant number of columns 'DA:PERTURBATION' containing the time of the perturbation (Not used in STASNet)
At least one column with column name 'DV:READOUT' containing the measured values for each readout
'extractStructure' returns a C++ object of class 'ModelStructure'
'extractBasalActivity' returns vector of character
'extractMIDAS' returns a matrix or a data.frame under MIDAS format
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.