How to use DNA Baser Sequence Assembler
(Step by step tutorial)
Building the project
Open DNA Baser by clicking its icon on your desktop. When DNA Baser starts, the Project Manager should open by default.
Navigate to the folder where your sample files are.
Step 2. (optional)
Open the Assembly Settings tab to choose the parameters for:
Note: In DNA Baser v2, these settings can be found in Settings window.
Step 3. (optional)
Select the primers you want to use for the removal of contaminant vector sequences.
Step 4. (optional)
Choose a name for this current project. DNA Baser will automatically choose a name for you but you can change it. Use this box to choose/change project's name:
You can add files to the Job List in several ways:
If you want to remove files from the Job List, use the button or press the Delete key.
Running the project
To start the assembly process, press the START button. During assembly, DNA Baser will:
The program will show an explicit warning if you try to assemble less than two files. This can happen because DNA Baser removed some samples from the job because:
Analyzing the results
After the assembly process, you should check the log window to see if there were any warnings/errors (invalid input files, unassembled files, etc) and to see the summary of the job (quality of the input files, total number of mismatches, metadata integration, etc). The errors are shown in red color; warnings in orange.
The assembled files, the corresponding chromatograms and the consensus contig are displayed in the assembly window.
The next tutorial explains how to:
If you have any questions, don't hesitate to contact us.
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