You may copy and paste the primer sequences from the text file you downloaded ( primer.txt). Enter the forward and reverse primers in the appropriate boxes.For the tag file, choose tag_file.txt from the files you downloaded.Compressed files are accepted and reduce upload times. It consists of bacterial 16S amplicons from a pyrosequencing experiment. For the sequence file, choose example_454Reads.fastq from the files you downloaded for this tutorial.A job name so you may easily identify the result later, e.g.Some explanation of the tool is given at the top of the screen. Log in to your personal RDP work space, or create an account if you do not already have one.Go to RDP’s home page at and do the following:
Single Reads with Primers & Barcodes Web-based Initial Processing – 16Sĭownload the file init_proc.zip from here and place it in the sub-directory Single_reads you created above. For example, for now create a tree of nested sub-directories as in the figure below: I suggest that you create sub-directories for each task. Notepadd++ correctly displays the lines regardless of the way the line endings are formatted, and allows you to change the line ending format if necessary.Ĭreate a directory on your computer for these tutorial exercises. Line endings in the text result files are in Unix format and all lines run together in most Windows programs. Notepad++ is a text editor useful for reading result files from RDP’s web-based tools. A compression utility such as WinZip or Zip-7.Windows users should have the following programs installed: Learn how to use RDP’s web-based Initial Processing tool to do the following: This lesson covers use of the web-based tool. These tasks may be accomplished with both RDP’s web-based and command line tools. It is usually appropriate to trim them of primers and bar codes and filter them for quality at the same time. The first step in processing sequencing data is to sort the sequences by sample.
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