Set Analysis Parameters
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1
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Navigate to BaseSpace, click the Apps tab. |
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3
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From the drop-down list, select version 2.0.0, and then click Launch to open the app. |
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4
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In the Analysis Name field, enter the analysis name. |
By default, the analysis name includes the app name, followed by the date and time that the analysis session starts.
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5
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From the Save Results To field, select the project that stores the app results. |
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6
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From the Reference Genome field, select the reference genome you want to align. |
The default is Human (UCSC hg19 PAR-Masked).
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7
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From the Annotation field, select either RefSeq or Ensembl for gene and transcript annotation reference database. |
The default is RefSeq.
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8
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From the Start from BAM (AppResult) field: |
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a
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Select Yes to use BAM output files from the Isaac Whole Genome Sequencing v4.0 App. This option gives you a quicker turnaround time. |
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b
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Select No to use sample pairs. The default is No. |
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9
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From the Sample Pairs field, click Select Sample Pairs to open the Select Sample Pairs screen, and then select the normal and tumor samples you want to analyze. Click Confirm. |
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10
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From the AppResult Pairs field, click Select AppResult Pairs to open the Select AppResults Pairs screen, and then select the normal and tumor app results you want to analyze. Click Confirm. |
The Tumor Normal v2.0 App begins analysis of the samples.
When analysis is complete, the app updates the status of the app session and sends a notification email to you.
Tumor Normal v2.0 App Online Help