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1.
Figure 2

Figure 2. From: Automating dChip: toward reproducible sharing of microarray data analysis.

A chromosome viewpoint is reached during an automated run. A dialog displays the user comments for this viewpoint.

Cheng Li. BMC Bioinformatics. 2008;9:231-231.

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2.
Figure 3

Figure 3. From: Automating dChip: toward reproducible sharing of microarray data analysis.

Part of the analysis report file generated after an automated run, viewed in the Microsoft Word "Reading" layout.

Cheng Li. BMC Bioinformatics. 2008;9:231-231.

CitationFull text

3.
Figure 1

Figure 1. From: Automating dChip: toward reproducible sharing of microarray data analysis.

The dChip automation dialog to specify automation file name, organize menu steps and viewpoints, and edit comments. The following menu steps and viewpoints are included in the automation file "lung_10k_demo": "Analysis/Open group" menu to open a set of array image files and read in a sample information file, "Analysis/Normalize & Model" menu to normalize data and compute SNP signal values, "Tools/Export expression" menu to export signal values into a data file, "Analysis/Chromosome" menu to view copy number and loss of heterozygosity data along chromosome, and a chromosome viewpoint to display an interesting chromosome region. Comments associated with an automation step can be edited in the box on the left. "Analysis/Normalize & Model" is not selected in the dialog since it only needs to be run once to save results into dChip internal data files, which are used in subsequent or shared dChip sessions.

Cheng Li. BMC Bioinformatics. 2008;9:231-231.

CitationFull text

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