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iSeq 100 Run Setup v1.0

Overview

The iSeq 100 Run Setup includes the following functionality.

Preconfigured iSeq 100 Run Setup workflow that supports the preparation of samples for use on the Illumina® iSeq™ 100 Sequencing System provides a targeted approach to next-generation sequencing (NGS).
Automated calculation of sample and buffer volumes.
Automated calculation or display of reagents at every step in the protocol.
Automatic step transition when required.
Automatic placement of samples when necessary.
Local Run Manager and manual sample sheet generation for use on the iSeq 100.

Protocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

Protocol Type = Sequencing

Next Steps Configuration

Step 1: Dilute Library to 1nM (iSeq 100 v1.0)

Master Step Name = Dilute Library to 1nM - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Calculate Final & Library Volumes - iSeq

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Record Details
Trigger Style = Automatic upon exit

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

Master Step Name = Dilute Library to Loading Concentration - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Copy Library Prep Kit & Starting Molarity and Set Loading Concentration - iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

Calculate Library & RSB Volumes - iSeq

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Not Used

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 3: Add a PhiX Control (iSeq 100 v1.0)

Master Step Name = Add a PhiX Control (iSeq 100 v1.0)
Step Type = No Outputs
Reagent Kits

Automations

Copy Library Prep Kit- iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

Calculate Starting PhiX, RSB & Diluted PhiX Volumes

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Record Details
Trigger Style = Automatic upon exit

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 4: Run Setup (iSeq 100 v1.0)

Master Step Name = Run Setup - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Copy Library Prep Kit- iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

1. iseq LRM sample sheet

Trigger Location = Record Details
Trigger Style = Manual button

2. iseq manual sample sheet

Trigger Location = Record Details
Trigger Style = Manual button

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Row

Record Details

Step Data (Master Step Fields)

iSeq 100 Run Setup v1.0

Overview

The iSeq 100 Run Setup includes the following functionality.

Preconfigured iSeq 100 Run Setup workflow that supports the preparation of samples for use on the Illumina® iSeq™ 100 Sequencing System provides a targeted approach to next-generation sequencing (NGS).
Automated calculation of sample and buffer volumes.
Automated calculation or display of reagents at every step in the protocol.
Automatic step transition when required.
Automatic placement of samples when necessary.
Local Run Manager and manual sample sheet generation for use on the iSeq 100.

Protocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

Protocol Type = Sequencing

Next Steps Configuration

Step 1: Dilute Library to 1nM (iSeq 100 v1.0)

Master Step Name = Dilute Library to 1nM - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Calculate Final & Library Volumes - iSeq

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Record Details
Trigger Style = Automatic upon exit

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

Master Step Name = Dilute Library to Loading Concentration - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Copy Library Prep Kit & Starting Molarity and Set Loading Concentration - iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

Calculate Library & RSB Volumes - iSeq

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Not Used

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 3: Add a PhiX Control (iSeq 100 v1.0)

Master Step Name = Add a PhiX Control (iSeq 100 v1.0)
Step Type = No Outputs
Reagent Kits

Automations

Copy Library Prep Kit- iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

Calculate Starting PhiX, RSB & Diluted PhiX Volumes

Trigger Location = Record Details
Trigger Style = Manual button

Set Next Step - Advance

Trigger Location = Record Details
Trigger Style = Automatic upon exit

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Column

Record Details

Step Data (Master Step Fields)

Step 4: Run Setup (iSeq 100 v1.0)

Master Step Name = Run Setup - iSeq 100 v1.0
Step Type = Standard
Derived Sample Generation = Fixed, 1

Automations

Copy Library Prep Kit- iSeq

Trigger Location = Record Details
Trigger Style = Automatic upon entry

1. iseq LRM sample sheet

Trigger Location = Record Details
Trigger Style = Manual button

2. iseq manual sample sheet

Trigger Location = Record Details
Trigger Style = Manual button

Queue/Ice Bucket

Defaults
- Sample Grouping = Group by Containers
- Well Sort Order = Row

Record Details

Step Data (Master Step Fields)

bash -l -c "/opt/gls/clarity/bin/java -jar /opt/gls/clarity/extensions/ngs-common/v5/EPP/ngs-extensions.jar -i {stepURI:v2} -u {username} -p {password} \
script:evaluateDynamicExpression \
-t false \
-h false \
-exp 'output.::Library Prep Kit:: = input.::Library Prep Kit:: ; \
output.::Starting Molarity (nM):: = input.::Final Molarity (nM):: ; \
if (output.::Library Prep Kit:: == ::100% PhiX::) {step.::Loading Concentration (pM):: = 100} ; \
if (output.::Library Prep Kit:: == ::AmpliSeq Library PLUS for Illumina::) {step.::Loading Concentration (pM):: = 40} ; \
if (output.::Library Prep Kit:: == ::Nextera DNA Flex::) {step.::Loading Concentration (pM):: = 75} ; \
if (output.::Library Prep Kit:: == ::Nextera Flex for Enrichment::) {step.::Loading Concentration (pM):: = 50} ; \
if (output.::Library Prep Kit:: == ::Nextera XT DNA::) {step.::Loading Concentration (pM):: = 100} ; \
if (output.::Library Prep Kit:: == ::TruSeq DNA Nano::) {step.::Loading Concentration (pM):: = 125} ; \
if (output.::Library Prep Kit:: == ::TruSeq DNA PCR-Free::) {step.::Loading Concentration (pM):: = 75}' \
-log {compoundOutputFileLuid0}"

bash -l -c "/opt/gls/clarity/bin/java -jar /opt/gls/clarity/extensions/ngs-common/v5/EPP/ngs-extensions.jar -i {stepURI:v2} -u {username} -p {password} \
script:evaluateDynamicExpression \
-t false \
-h false \
-exp 'output.::Library Prep Kit:: = input.::Library Prep Kit:: ; \
output.::Starting Molarity (nM):: = input.::Final Molarity (nM):: ; \
if (output.::Library Prep Kit:: == ::100% PhiX::) {step.::Loading Concentration (pM):: = 100} ; \
if (output.::Library Prep Kit:: == ::AmpliSeq Library PLUS for Illumina::) {step.::Loading Concentration (pM):: = 40} ; \
if (output.::Library Prep Kit:: == ::Nextera DNA Flex::) {step.::Loading Concentration (pM):: = 75} ; \
if (output.::Library Prep Kit:: == ::Nextera Flex for Enrichment::) {step.::Loading Concentration (pM):: = 50} ; \
if (output.::Library Prep Kit:: == ::Nextera XT DNA::) {step.::Loading Concentration (pM):: = 100} ; \
if (output.::Library Prep Kit:: == ::TruSeq DNA Nano::) {step.::Loading Concentration (pM):: = 125} ; \
if (output.::Library Prep Kit:: == ::TruSeq DNA PCR-Free::) {step.::Loading Concentration (pM):: = 75}' \
-log {compoundOutputFileLuid0}"

iSeq 100 Run Setup v1.0

hashtagOverview

hashtagProtocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

hashtagStep 1: Dilute Library to 1nM (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 3: Add a PhiX Control (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 4: Run Setup (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

iSeq 100 Run Setup v1.0

hashtagOverview

hashtagProtocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

hashtagStep 1: Dilute Library to 1nM (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 3: Add a PhiX Control (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

hashtagStep 4: Run Setup (iSeq 100 v1.0)

hashtagAutomations

hashtagQueue/Ice Bucket

hashtagRecord Details

Overview

Protocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

Step 1: Dilute Library to 1nM (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 3: Add a PhiX Control (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 4: Run Setup (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Overview

Protocol 1: Dilute Libraries and Run Setup (iSeq 100 v1.0)

Step 1: Dilute Library to 1nM (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 2: Dilute Library to Loading Concentration (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 3: Add a PhiX Control (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details

Step 4: Run Setup (iSeq 100 v1.0)

Automations

Queue/Ice Bucket

Record Details