# Workflows and Reports Tab

### Analyze Single Experiment Workflow

* The analyze single experiment workflow allows one experiment to be tested. Activate the an experiment with desired thresholds applied and select Analyze Single Experiment from the Workflows & Reports list.
* Confirm Network object count and threshold settings and click Apply.
* Results are returned by ontology, statistics are -log(pValue) (1.3 = 0.05)
* Results can be examined by clicking on the name. See [Legend](http://rowley.mit.edu/dropbox/GeneGoTraining/MetaCoreQuickReferenceGuide.pdf) for more information about maps and networks. Note: network objects included in filtered sets display expression results in image.
* Different results link to different types of data.
  * Pathway maps are nice interactive maps
  * Process networks and network statistics produce editable network maps.
  * GO Processes produce lists that can be used to draw networks.
  * Diseases link to disease pages.

### Enrichment Analysis Workflow

* This workflow requires at least 2 active experiments. Activate all 3 ColonMet experiments and refresh the browser page to confirm.
* Select the Enrichment Analysis link to launch the workflow. Ensure the correct experiments are activated and click Next.
* Fold change, p-value signal directionality can be adjusted on the next page. NOTE: the number of Network objects that meet threshold criteria are indicated. Clicking Apply launches the analysis.
* Results are returned by ontology, statistics are -log(pValue) (1.3 = 0.05)
* Results can be examined by clicking on the name. See [Legend](http://rowley.mit.edu/dropbox/GeneGoTraining/MetaCoreQuickReferenceGuide.pdf) for more information about maps and networks. Note: network objects included in filtered sets display expression results in image.
* Different results link to different types of data.
  * Pathway maps are nice interactive maps
  * Process networks produce editable network maps.
  * GO Processes produce lists that can be used to draw networks.
  * Diseases link to disease pages.

### Compare Experiments Workflow

* This workflow requires at least 2 active experiments. Activate all 3 ColonMet experiments and refresh the browser page to confirm.
* Select the Compare Experiments link to launch the workflow. Ensure the correct experiments are activated and click Next.
* Fold change, p-value signal directionality can be adjusted on the next page. NOTE: the number of Network objects that meet threshold criteria are indicated. Clicking Apply launches the analysis.
* Genes passing thresholds in each experiment are compared and grouped in 3 categories:

1. Unique
2. Similar - present in more than one list
3. Common - present in all lists

* Results are returned by ontology, statistics are -log(pValue) (1.3 = 0.05)
* Results can be examined by clicking on the name. See [Legend](http://rowley.mit.edu/dropbox/GeneGoTraining/MetaCoreQuickReferenceGuide.pdf) for more information about maps and networks. Note: network objects included in filtered sets display expression results in image.
* Different results link to different types of data.
  * Pathway maps are nice interactive maps
  * Process networks and produces editable network maps.
  * GO Processes produce lists that can be used to draw networks.
  * Diseases link to disease pages.
* Histograms can be sorted according to statistics

1. Statistically significant
2. Deferentially effected
3. Similarity by
4. Particular

* Histogram are interactive, network statistics panel reports results.


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