Torrent Browser Analysis Report Guide
Torrent Suite Software space on Ion Community
The IonReporterUploader plugin
See the Ion Reporter Software Integration Guide for complete information on the IonReporterUploader plugin. A brief description is included below.
Overview
The IonReporterUploader plugin transfers results files directly from a Torrent Suite Software analysis to your Ion Reporter Software organization (available under separate license).
You include the Uploader plugin settings in the run plan that you use for your sequencing run. W hen your Torrent Suite Software analysis completes, t he run plan automatically launches the plugin and begins your file transfer . After the transfer, your I on Reporter Software is automatically launched.
One-time manual launch from a completed run report (with the Select plugins to run button) is also supported. Manual plugin launch does not support automatic I on Reporter Software workflow launch.
Integration with Ion Reporter Software
Ion Reporter Software uses the Torrent Suite Software output BAM file for analysis. The Ion Reporter Software annotation-only workflow also accepts the VCF output file of the Torrent Variant Caller plugin. Use the IonReporterUploader plugin to transfer these output files to Ion Reporter Software.
In a run plan template wizard, you can set up the IonReporterUploader plugin to automatically transfer the output files to Ion Reporter Software, after each completion of your Torrent Suite Software analyses.
See Integration with Ion Reporter Software for an overview of Torrent Suite Software output files and how these files are used with Ion Reporter Software.
Command-line version of the Uploader
A UNIX command-line version of the Uploader is available. The command-line Uploader runs on any standard UNIX box (and is not limited to Torrent Servers).
Download the command-line Uploader from your I on Reporter Software profile. Instructions for the command-line Uploader available in the command-line version and are included with the I on Reporter Software documentation (which is also downloaded from your I on Reporter Software profile and available in the I on Reporter Software help ).
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Torrent Browser Analysis Report Guide
Run Report Metrics
Run Metrics Overview
Run Report Metrics Before Alignment
Run Report Metrics on Aligned Reads
Barcode Reports
Test Fragment Report
Report Information
Output Files
Plugin Summary
Assembler SPAdes Plugin
Coverage Analysis Plugin
ERCC Analysis Plugin
FileExporter Plugin
FilterDuplicates Plugin
IonReporterUploader Plugin
See
The Ion Reporter™ Software Integration Guide
Run RecognitION Plugin
SampleID Plugin
TorrentSuiteCloud Plugin
Torrent Variant Caller Plugin
Torrent Variant Caller Parameters
Example Torrent Variant Caller Parameter File
Torrent Variant Caller Output
The Command-Line Torrent Variant Caller
Ion Reporter™ Software Features Related to Variant Calling
Integration with TaqMan® and PCR