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Chapter 3 Create a Planned Run
3
Planned Run workflow key fields
Planned Run workflow key fields
Step or field name
Ion Reporter
Research Application
Instrument
Chip Type
Library Kit Type
Template Kit
Sequencing Kit
Barcode Set (optional)
Flows
Plugins
Projects
Run Plan Name
Reference Library
BED files
Sample Tube Label (Required) Enter or scan the barcode of the Ion Chef
Chip Barcode
22
If the Ion Reporter
™
Software is installed and enabled, and you want to analyze the
run data using the software, select the Ion Reporter Account, then select the Ion
™
Reporter
workflow from the Existing Workflow dropdown list.
Select the Research Application and Target Technique that represent your
sequencing experiment.
Select Ion GeneStudio
™
Select the Ion 520
™
Chip or Ion 530
Select the kit used to prepare the library.
Select Ion 520 & Ion 530 ExT Kit-Chef.
Select Ion S5 ExT Sequencing Kit.
If you are using barcodes with:
• DNA libraries – Select the appropriate barcode set used.
• RNA libraries prepared using the Ion Total RNA-Seq Kit v2 – Select the
IonXpressRNA barcode set, which contains all 16 barcodes in the Ion Xpress
RNA‑Seq Barcode 1–16 Kit.
If you are not using barcodes with:
• DNA libraries – Leave the Barcode Set field blank.
• RNA libraries prepared using the Ion Total RNA-Seq Kit v2 – Select
RNA_Barcode_None from the dropdown list. This will ensure that the proper
trimming is performed on the resulting sequence when the RNA library does
not have a barcode.
Enter the appropriate number of flows for the read length (for example, 850 flows
for 400‑base‑read sequencing and 1,350 flows for 600‑base‑read sequencing).
Select the appropriate plugins for your application.
Select or add a project to group your run data. You can include runs in multiple
projects, and remove runs from a project at any time.
Enter a name for the run.
Select a reference library uploaded to the Torrent Suite
Select the Target Regions or HotSpot Regions BED file in the Torrent Suite
Software, if any.
load your sample into the Ion Chef
Enter or scan the chip barcode.
Description
S5 System.
™
Chip.
™
Library Sample Tube that you will use to
™
Instrument.
Ion 520
™
™
Software, if any.
& Ion 530
™
ExT Kit − Chef User Guide
™
™
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