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- You can define multiple samples and attributes even before data has been imported, and therefore allowing you canto:
- customize the name of your samples (and not use , thus avoiding the automatic sample names generated based on file names)
- import sample sheets as defined by the instrument that generated your data
- You can simultaneously create the sample table and import data, which allows allowing you to:
- combine several files into one sample
- import data located in multiple subdirectories
This process of generating a sample table based on a text file can only be done once per project. Additional samples or attributes can still be added using the Import data or Manage attributes buttons under the Data Tab.
Select the Text File
The text file must be created outside of Partek® Flow® (you can use software such as Partek® Genomics Suite®, Microsoft® Excel® or any text editor). A valid text file is a tab-delimited text file that contains one sample per row and columns containing sample information. At least one column must have unique entries and will be suggested as Sample IDs. Additional columns may contain numeric or categorical attributes and (optional) filenames. Examples of text files are shown in Figures 3 and 6.
To select the text file, create a new project and in the blank Data Tab (no samples have been imported yet), click the Assign sample attributes from a file button (Figure 1).
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Navigate to the file using the browser as shown in Figure 2. The text file may be located in either the Partek Flow server, My computer, or from a URL. However, if you wish to create the sample table and start importing the data at the same time (explained later in this section below), the text file must be on the Partek Flow server.
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The text file will be summarized as in Figure 4. The first two columns show the headers and example terms parsed from the text file in Figure 3. The suggested attribute names can be renamed before import. Columns that contain unique entries are recognized as possible Sample IDs and can be selected using the radio button. You can choose which attributes to be included andinclude and, if applicable, whether they are numeric or categorical. The Show/hide file preview link allows you to preview the text of the tab delimited text file you are using.
In the example in Figure 4, the columns for "Sample name" and "Freezer Location" are both unique and the former is selected as the Sample ID. The "Freezer location" has been deselected and it will not be included in the resulting Sample table. Since "Age" has all number terms, the Attribute type column for it is a drop down menu to choose between Numeric and Categorical. There are no filenames in the text file so the Files column is empty.
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The actual files can be in the same directory as the text file or in a different directory. If the files are in a different directory, you must include the file paths.
It is possible to have a different number of files associated with different samples.
Text file and data are in the same directory
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Similar to the previous section, the text file will be summarized as in Figure 7. If the file types are valid, Partek Flow recognized will recognize the filenames as valid file types and was able to locate the files within the directory. The Files column represent files to be imported.
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Click Import and the table will be created. After a few few seconds, you will notice that the server icon 
will be animated (Figure 8). This means that the process of importing data files have started. Click the Queue dropdown and select View queued tasks... to see the queue of import tasks (Figure 9).
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At this stage, you can also go to the Analyses Tab of the project and see that the data node has been created but the color is light blue, which indicates the import is not complete (Figure 10, left). Once all the files have been imported from the queue, Analyses Tab will show the data node to be dark blue will appear darker (Figure 10 right).
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To view the files associated with the data, go to the Data Tab and click Show data files to expand the table. Figure 11 shows that 4 files were successfully imported for each sample. You can add more or delete samples as described in the Adding samples section.
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