To use the NextGENe Condensation Results Filter tool
1. On the NextGENe main menu, click Tools > Condensation Results Filter.
The Condensation Results Filter dialog box opens. The File Format section on the dialog box is an example of an output consensus sequence that is produced by the Condensation Tool. The sequences are assigned read names that reflect, from left to right, the anchor sequence, the shoulder sequences, and the counts of the forward and reserve reads that were used to create the sequence.
2. In the Input pane, do one of the following:
• If you are not using paired reads data, then click Browse to browse to and select the input data file that is to be filtered.
• If you are using paired reads data:
• Click Browse to browse to and select the first input data file that is to be filtered.
• Click Paired Reads, and then click Browse to browse to and select the second input data file that is to be filtered.
3. In the Output field, you can leave the default value for the location of the output files as is (the default value is the directory path for the (first) input data file), or you can click Set to select a different location.
4. In the Settings pane, select the appropriate options for your analysis. You can accept the default values for the selected settings or you can change the values as needed.
5. Click OK.
A message opens when the process is finished. A number of output files are created based on the options that you selected. The output files are appended with the phrase “_Filter” as shown in the figure below.
