Items in PURPLE and links are the things you must modify. Change PURPLE items to BLACK when you save your page. 

Downsample reads

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Reduce the number of reads in fastq or fasta files to reduce overload of an assembler.

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• To use Downsample reads, import your data in ___ fastq format.
• Resources: http://replacehannonlab.with.URL.for.tool.documentation.from.the.tool.source.orgcshl.edu/fastx_toolkit/commandline.html#fastx_collapser_usage

Test Data

Input File(s)

Use TerriblyIncomprehensible.txt and HorriblyWritten.txt from :

  wt1.fq

  wt2.fq

 from the directory above as test input.

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When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.Use either the "

• Default parameters

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• Default parameters only, no further configuration needed.

OR

• Use these parameters within the DE app interface:
  • parameter name - value/setting
  • parameter name - value/setting

• only, except change unpaired to paired reads.

Output File(s)

Expect a text file as output files named after the input files as output. For the test case, the output file files you will find in the example_data directory is named BeautifulProse.txt.are named:

  dwn_smpl_wt1.fq

  dwn_smpl_wt2.fq

Tool Source for App

• http://replacehannonlab.with.URL.for.tool.orgcshl.edu/fastx_toolkit/commandline.html#fastx_collapser_usage