ILRI Research Computing

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====== NGS QC Toolkit ======A toolkit for the quality control (QC) of next generation sequencing (NGS) data. The toolkit comprises of user-friendly stand alone tools for quality control of the sequence data generated using Illumina and Roche 454 platforms with detailed results in the form of tables and graphs, and filtering of high-quality sequence data. It also includes few other tools, which are helpful in NGS data quality control and analysis.

===== Information =====

  * Version: 2.3.3
  * Added: August, 2014
  * Link: http://59.163.192.90:8080/ngsqctoolkit/

===== Usage =====

=== See versions of ngsqctoolkit which are available ===
<code>module avail ngsqctoolkit</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>wget http://59.163.192.90:8080/ngsqctoolkit/cgi-bin/download.pl?toolkit=NGSQCToolkit_v2.3.3.zip
unzip NGSQCToolkit_v2.3.3.zip
sudo mkdir /export/apps/ngsqctoolkit
sudo cp -r NGSQCToolkit_v2.3.3 /export/apps/ngsqctoolkit/2.3.3
sudo chmod +x /export/apps/ngsqctoolkit/2.3.3/Format-converter/*.pl
sudo chmod +x /export/apps/ngsqctoolkit/2.3.3/QC/*.pl
sudo chmod +x /export/apps/ngsqctoolkit/2.3.3/Statistics/*.pl
sudo chmod +x /export/apps/ngsqctoolkit/2.3.3/Trimming/*.pl</code>