For new projects, a sample table can be automatically created from a tab-delimited text file even before any files are imported. A valid text file must contain at least one column that has unique entries (to be used as Sample IDs) and may have additional columns with sample information such as experimental attributes.
In a Data Tab where no samples have been imported yet (Figure 1), click the Assign sample attributes from a file button.
Figure 1. A New project with no samples in the Data Tab
Navigate to the file using the browser as shown in in Figure 2. Click on the box next to the text file that you want to use and click Next.
Figure 2. Locating a text file that contains sample information
Depending on the content and location of the text file, creating the sample table can be done with or without data import.
Creating a Sample Table without Data Import
Text files that contain only sample information and attributes such as the one shown below are useful to create a blank table with no files associated. The text file may be located in either the Partek Flow server, My computer, or from a URL (Figure 2).
Sample name Freezer Location Treatment Genotype Age NA1031 A8 Case wt 15 NA1032 A9 Case mutant 18 NA1033 A10 Control wt 17 NA1034 A11 Control mutant 17 Table 1. Text with Attributes
TABLE
During import, Partek Flow will look for columns that contain unique entries and suggest those that could possibly be used as Sample IDs. In the example below, the columsn for "Sample name" and "Freezer Location" are unique and you can select one as the sample ID. Note that there can only be one column to be assigned as sample IDs.
You can also unselect the columsn you do not wish to import
Text can be imported as categorical attributes
Numeric can be imported as smaple attributes
You can rename the header.
Click import and the table will be created
Each row is now a sample but is not associate with any file. Click Show data files to expand the table and associate files. For more details see the relevant section here.
Creating a Sample Table with Data Import
A feature of creating the sample ability to combine this step with data import ... the additional feature of importing samples during table creation (described below) are currently only available if the text file is in the Partek Flow Server.
can only be at the same time as creating the sample table) can only be performed if
a sample table that also includes the locations of filenames can only be based on the sample table (as described later in this section)
The text file must be in the server or a folder that is readable by the partek flow server. the text file contains filenames
A valid text file:
TABLE TEXT FILE NO PATH
useful if there are many files for one sample, You can add as many columns as you want on the right
Flow recognizes sees that some columns in your text file are filenames of
FIGURE OF NAVIGATION... SHOW THAT THE DATA IS IN THE SAME DIRECTORY MYDATA
FIGURE WITH FILENAMES
FIGURE RESULTING TABLE
FIGURE IMPORT task
FIGURE EXPANDED TABLE
In the example above, the text file and Data files are in the same directory. If your samples are in different subdirectories, YOU CAN USE PATHS. RELATIVE OR ABSOLUTE
Relative path
FIGURE NAVIGATION... SHOW THAT THE DATA IS DIFFERENT DIRECTORY THAN MY DATA
TABLE RELATIVE PATH
Relative to the text file
Absolute path
FIGURE NAVIGATION SHOW THAT THE DATA IS IN DIFFERENT DIRECTORY AND the directory structure starts with /home/directory....
TABLE ABSOLUTE PATH
you must write the path this way
For a short video of using a text file, please see. the
Additional Assistance
If you need additional assistance, please visit our support page to submit a help ticket or find phone numbers for regional support.
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