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#### Basic file input parameters

This is a toy data set of a small amount of control and experimental data from a DNA Microarray .
The data file is comma-delimited.
The data has been ln-transformed.
The first row has a '#' so is considered a comment line.
The data starts on the first line not beginning with a '#'.
There is one label column, and then there are four control columns and then four experimental columns.

- Delimiter: Commas
- Row Start: 1
- Number of label columns: 1
- Number of first condition columns: 4
- Number of second condition columns: 4

#### Bayes-regularized Analysis Parameters

This performs a two-sample t-test using the Bayes-regularized variance estimates.
No normalization is performed.
PPDE analysis and multiple hypothesis testing correction are performed on the p-values.

- Normalization: None
- Bayes Sliding Window: 101
- Bayes Confidence: 4
- Run PPDE: checked
- Run Multiple Hypothesis Testing Correction: checked

#### Non Bayes-regularized Analysis Parameters

This is equivalent to a standard t-test using empirical variances.
No normalization is performed.
PPDE analysis and multiple hypothesis testing correction are performed on the p-values.

- Bayes Confidence: BLANK (Default)
- Run PPDE: checked
- Run Multiple Hypothesis Testing Correction: checked