Difference between revisions of "Construct composite modules on tracks (analysis)"
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** '''Elite size''' – Number of elite organisms (i.e. best organisms to survive unconditionally) | ** '''Elite size''' – Number of elite organisms (i.e. best organisms to survive unconditionally) | ||
** '''Mutation rate''' – This controls how often mutation occurs and how significant they are (0..1) | ** '''Mutation rate''' – This controls how often mutation occurs and how significant they are (0..1) | ||
| − | * ''' | + | * '''Score calculation parameters''' (expert) – Parameters which control score calculation |
** '''Penalty rate''' – Which penalty value will be assigned | ** '''Penalty rate''' – Which penalty value will be assigned | ||
** '''Site models in focus''' – At least one of these models must present in the resulting composite model to have non-zero score | ** '''Site models in focus''' – At least one of these models must present in the resulting composite model to have non-zero score | ||
Revision as of 12:31, 12 April 2013
Predict composite module using site search on tracks result
Parameters:
- Experiment track – Path to experiment ('yes') track
- Control track – Path to control ('no') track
- Genetic algorithm parameters (expert) – Genetic algorithm parameters
- Number of iterations – Number of iterations
- Population size – Population size
- Non-change limit – Number of iterations to stop after if best score is not improved
- Elite size – Number of elite organisms (i.e. best organisms to survive unconditionally)
- Mutation rate – This controls how often mutation occurs and how significant they are (0..1)
- Score calculation parameters (expert) – Parameters which control score calculation
- Penalty rate – Which penalty value will be assigned
- Site models in focus – At least one of these models must present in the resulting composite model to have non-zero score
- Model parameters – Model parameters
- Min modules – Minimal number of modules
- Max modules – Maximal number of modules
- Gaussian model (expert) – Gaussian model
- Min models – Minimal number of site models in module
- Max models – Maximal number of site models in module
- Min sites to account – Minimal number of sites to account
- Max sites to account – Maximal number of sites to account
- Min module width – Minimal width (sigma) of the module
- Max module width – Maximal width (sigma) of the module
- Output path – Path to store result
