3. GS Run Browser
3.
GS Run Browser
3.1 Launching the GS Run Browser
3.2 Opening a Data Set
3.3 Overview of the GS Run Browser Interface
3.4 The Overview Tab
3.5 The Wells Tab
3.6 The Signals Tab
3.7 The Reads Tab
3.8 The Control DNA Tab
3.9 The Filters Tab
The GS Run Browser application is identical for both the GS Junior and GS FLX+ Instruments. However, due to differences in Instrument hardware, some references in this manual will be specific to either the GS Junior or the GS FLX+ Instruments. The main difference is the PTP device layout.
The PTP device on the GS FLX+ Instrument supports division into multiple (2, 4, 8 or 16) regions. The GS Junior Instrument PTP device only supports a single region. Therefore, any references to multiple regions are specific to the GS FLX+ Instrument.
The GS Run Browser application allows the user to interactively view and analyze the results of sequencing Runs performed on a GS Junior or GS FLX+ Instrument, to assess the general quality of a Run or for troubleshooting when results are sub-optimal. It also allows one to launch data processing of the raw Run data ( via gsRunProcessorManager), and to prepare a data package that can be sent to Roche Customer Support for troubleshooting (via gsSupportTool, described in Section
4
). It is available on the GS FLX+ Instrument, on the GS Junior Attendant PC, a DataRig or GS FLX Titanium cluster.
The application has the following tabs:
•
Overview: Run summary information
•
Wells: Raw images of the PTP Device captured during the Run; Locations and status of all identified active wells, well density information for raw wells and key pass wells, and CAFIE correction data
•
Signals: Raw or subtracted flowgrams for selected positions on the images; or fully processed flowgrams for all the data-generating wells detected during the Run
•
Reads: Read length and quality statistics for the sample library or the Control DNA reads
•
Control DNA: Consensus flowgrams and accuracy metrics for the Control DNA sequence reads
•
Filters: Raw signal statistics for the sample library or the Control DNA reads
