IGA Library Prep Automated v2.1
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IGA Library Prep Automated v2.1 contains preset protocols that support the preparation of samples and libraries used for sequencing. These protocols can be used with the IGA NovaSeq Sequencing v2.1 workflow and NextSeq 1000/2000 v2.3 workflow (which is installed separately). The protocols provide the following functions:
File-based integration with the Hamilton robots that are used for liquid handling steps.
Automated calculation of sample and buffer volumes.
Automated calculation or display of reagents.
When required, automatic step transition.
Protocol Type = Sample Prep
Next Steps Configuration
Master Step Name = Select Samples (IGA v2.1)
Step Type = No Outputs
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table
Column Headers
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
Container Name
Built-in
Container
LIMS ID (Container)
Built-in
Derived Sample
Sample Name
Built-in
Derived Sample
Waiting
Built-in
Project
Project Name
Built-in
Submitted Sample
Illumina Universal Sample Identifier
Built-in
Expanded View Fields
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Submitted Sample
Sample Conc.
Numeric
Decimal Places Displayed = 2
Submitted Sample
Units
Text
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
Container Name
Built-in
Container
LIMS ID (Container)
Built-in
Container
Well
Built-in
Derived Sample
Sample Name
Built-in
Derived Sample
Waiting
Built-in
Project
Project Name
Built-in
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
IGA WF Build Version
Text
Read Only
Default = 2.1.0.1
Library Prep Method
Text Dropdown
Required Field
Presets
Illumina DNA PCR-Free
Illumina DNA with Enrichment
Quick reference checklist: Sample Selection
Multiline Text
Read Only
Defaults = User tasks for this page: - Select Library Prep Method above - Select Next Steps
Step File Placeholders
Set Library Prep Method Script Log - Automatically attached
Sample Table (Table Columns - Global Fields)
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Derived Sample
Sample Name
Built-in
Submitted Sample
Library Prep Method
Text
Submitted Sample
Sample Conc.
Numeric
Decimal Places Displayed = 2
Submitted Sample
Submitted Sample Type
Text
Read Only
Submitted Sample
Units
Text
Protocol Type = Sample Prep
Next Steps Configuration
Master Step Name = Sample Plating (IGA v2.1)
Step Type = Standard
Derived Sample Generation = Variable
Naming Convention = {InputItemlName}
Defaults
Sample Grouping = Group by Projects
Well Sort Order = Column
Sample Table
Column Headers
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Derived Sample
Waiting
Built-in
Submitted Sample
Library Prep Method
Text
Submitted Sample
Sample Type
Text
Submitted Sample
Sequencing Method
Text Dropdown
Custom Entries
Presets
Single Read
Paired End Read
Indexed Single Read
Indexed Paired End Read
Submitted Sample
Submitted Sample Name
Built-in
Expanded View Fields
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Submitted Sample
Date Submitted
Built-in
Submitted Sample
Sample Category
Text
Defaults
Sample Grouping = Group by Projects
Well Sort Order = Column
Sample Table (Column Headers)
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Submitted Sample
Library Prep Method
Text
Submitted Sample
Sample Type
Text
Submitted Sample
Sequencing Method
Text Dropdown
Custom Entries
Presets
Single Read
Paired End Read
Indexed Single Read
Indexed Paired End Read
Submitted Sample
Submitted Sample Name
Built-in
Defaults
Sample Grouping = Group by Projects
Well Sort Order = Column
Placement Pattern = Column
Destination Containers
96 well plate
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
Liquid Handling Instrument ID
Text
Read Only
Quick reference checklist: Sample Plating. i) pre Liquid Handler
Multiline Text
Read Only
Defaults = User tasks for this page: - Select blue 'Run' button - Download Liquid Handler Input File
Quick reference checklist: Sample Plating. ii) post Liquid Handler
Multiline Text
Read Only
Defaults = User tasks continued: - Upload resulting Liquid Handler Output File - Select Next Steps
Step Sample Type
Text
Read Only
Step File Placeholders
Liquid Handler Input File - Automatically attached
Script Log File (Aggregated) - Automatically attached
Liquid Handler Output File - Manually uploaded
Sample Table (Table Columns - Global Fields)
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
Container Name
Built-in
Container
LIMS ID (Container)
Built-in
Container
Well
Built-in
Derived Sample
Sample Name
Built-in
Derived Sample
Submitted Sample Type
Text
Read Only
Derived Sample
Transfer Volume (ul)
Numeric
Submitted Sample
Sample Type
Text
Submitted Sample
Submitted Sample Labware Type
Text
Protocol Type = Sample Prep
Next Steps Configuration
Master Step Name = DNA Extraction - Blood (IGA v2.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1