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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Community rating: ?????
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
Info |
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Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> directory. downsample_reads |
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