Create Analysis_of_results.pl

gets three arguments. [Extreme Sets Algorithm's result] [MCL directory including MCL's result with various inflations*] [Miss rate in percentage (normally an integer between 0-5) ]
*: Each result should be in a separate folder.

For example : perl Analysis_of_results.pl ES_Halophiles_data_known MCL_Halophiles_data_known 3

Extreme set results in hierarchical clustering. &Fix_Extreme_set makes these clusters non hierarchical.

Using GS^2 algorithm, there is a score assigned for each cluster for both algorithms.
There is also a Sorensen Index calculated comparing Extreme Sets and MCLs clustering.

$Find_Known_groups omits clusters in which functions of non of the members are currently known.

&How_Correct uses Sorensen Index to see how much predictions we made is close to the actual functions.
Function predictions for each protein sequence is calculated in two ways. Either the whole cluster that protein sequence belongs to OR only neighbor protein sequences for that specific protein sequence we want to predict functions for.

There are a couple of MATLAB files generated as a result.