21. The process to set up run and analysis parameters in Local Run
Manager varies depending on the particular analysis workflow
module you use. Refer to the Local Run Manager module
guide for specific directions on how to create a run.
22. For analysis, BaseSpace Sequence Hub can pair with either run
mode. When the run mode is Local Run Manager and BaseSpace Sequence Hub is configured, both applications analyze
the data.
23. Local Run Manager is the default run mode, and it provides the
most streamlined workflow. You create and save runs in Local
Run Manager. The information is then sent to the control
software, where you select a run and continue run setup.
After sequencing, Local Run Manager automatically performs
data analysis. Separate sample sheets, and analysis applications
are not needed. Note: Local Run Manager is not a feature of
the control software. It is integrated software for recording
samples for sequencing, specifying run parameters, and
analyzing data.
24. When you perform the first sequencing run with NCS v 4.0 or
later, it is normal for flow cell registration to take more than
15 min during the automated check of the system.
25. After you select Home, it is not possible to return to view run
metrics. However, run metrics are accessible on BaseSpace
Sequence Hub or viewable from a standalone computer using
the Sequencing Analysis Viewer (SAV).
26. If data transfer is interrupted during the run, data are stored
temporarily on the instrument computer. When the connection is restored, data transfer resumes automatically. If the
connection is not restored before the run ends, manually
remove data from the instrument computer before a
subsequent run can begin.
27. The NextSeq System Software Suite includes a Universal Copy
Service. RTA v2 requests the service to copy files from a source
location to a destination location, and the service processes
copy requests in the order received. If an exception occurs,
the file is requeued for copy based on the number of files in the
copy queue.
28. RTA2 runs on the instrument computer, extracts intensities
from images, performs base calling, and assigns a quality score
to the base call. RTA2 and the control software communicate
through a web HTTP interface and shared memory files. If
RTA2 is terminated, processing does not resume and run data
are not saved. RTA2 provides real-time metrics of run quality
stored as InterOp files. InterOp files are a binary output containing tile, cycle, and read-level metrics and are required to
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Manager varies depending on the particular analysis workflow
module you use. Refer to the Local Run Manager module
guide for specific directions on how to create a run.
22. For analysis, BaseSpace Sequence Hub can pair with either run
mode. When the run mode is Local Run Manager and BaseSpace Sequence Hub is configured, both applications analyze
the data.
23. Local Run Manager is the default run mode, and it provides the
most streamlined workflow. You create and save runs in Local
Run Manager. The information is then sent to the control
software, where you select a run and continue run setup.
After sequencing, Local Run Manager automatically performs
data analysis. Separate sample sheets, and analysis applications
are not needed. Note: Local Run Manager is not a feature of
the control software. It is integrated software for recording
samples for sequencing, specifying run parameters, and
analyzing data.
24. When you perform the first sequencing run with NCS v 4.0 or
later, it is normal for flow cell registration to take more than
15 min during the automated check of the system.
25. After you select Home, it is not possible to return to view run
metrics. However, run metrics are accessible on BaseSpace
Sequence Hub or viewable from a standalone computer using
the Sequencing Analysis Viewer (SAV).
26. If data transfer is interrupted during the run, data are stored
temporarily on the instrument computer. When the connection is restored, data transfer resumes automatically. If the
connection is not restored before the run ends, manually
remove data from the instrument computer before a
subsequent run can begin.
27. The NextSeq System Software Suite includes a Universal Copy
Service. RTA v2 requests the service to copy files from a source
location to a destination location, and the service processes
copy requests in the order received. If an exception occurs,
the file is requeued for copy based on the number of files in the
copy queue.
28. RTA2 runs on the instrument computer, extracts intensities
from images, performs base calling, and assigns a quality score
to the base call. RTA2 and the control software communicate
through a web HTTP interface and shared memory files. If
RTA2 is terminated, processing does not resume and run data
are not saved. RTA2 provides real-time metrics of run quality
stored as InterOp files. InterOp files are a binary output containing tile, cycle, and read-level metrics and are required to
510
Shuyi Ma et al.