Trees | Indices | Help |
---|
|
|
|||
ErrorLogger | |||
ExpressionSimilarityMatrix The ExpressionSimilarityMatrix is basically an implementation of a matrix, that is suited for our purposes. |
|||
KnockoutTranssysProgram KnockoutTranssysProgram |
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|||
|
|
compute a distance adjacency matrix in which entries connecting a regulator to a cognate regulatee contain a score value computed by the scorefunc on the promoter element. All other entries are None. |
get cost matrix of a transsys network. Calculation rules are implemented in a generic score_function(). |
make a dictionary, where gene is the key and the product is the value, for easy and convenient access. It also provides a more understandable code and prevents errors, which could occur when using indices. |
compute a matrix of expression values obtained from single gene knockout networks. The matrix element m[i][j] contains the expression level of factor j observed in a network in which factor i is knocked out (by replacement with a nonfunc product in the encoding gene). Expression starts with the reference state, taken from ref_conc_matrix, and is carried out for timesteps timesteps. |
Trees | Indices | Help |
---|
Generated by Epydoc 3.0.1 on Mon Dec 9 12:27:52 2013 | http://epydoc.sourceforge.net |