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Date
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The date the sequencing run was performed.
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Data
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Contaminants – The path to the folder containing FASTA files of contaminants (used only for SmallRNA) |
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GenomePath – The reference genome folder containing the FASTA files to be used in the alignment step |
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Index2 – Represents the sequence string of this sample's index. Valid characters in this string are A,C,G,T and N. 'N' matches any base. |
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IndexSequence – Represents the sequence string of a sample's index. Valid characters in this string are A, C, G, T and N. 'N' matches any base. |
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MiRNA – The path to the folder containing FASTA files of mature miRNAs (used only for SmallRNA) |
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RNA – The path to the folder containing FASTA files of small RNAs (used only for SmallRNA) |
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SampleID – A string identifier for the sample. This is usually a bar code but can have any value. |
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Manifest – The manifest file |
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Name – A string identifier for the sample. This is used in the reporting web page. |
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Experiment Name
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(Optional) A descriptive name of the experiment.
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Investigator Name
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(Optional) The name of the investigator.
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Manifests
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This section is only used by the Amplicon workflow and is the name of the file (provided by Illumina) used in the Amplicon Workflow. It is mandatory for the Amplicon workflow and ignored by other workflows. The file specifies the alignments to a reference and the targeted reference regions used in the Amplicon workflow
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Project Name
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(Optional) A descriptive name of the run.
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Site Reports
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This section is optional and used by only the Resequencing and Custom Amplicon workflows. Each line below the SiteReports section header is the name of a SiteReport Input File. This file designates positions on a given chromosome to report the genotype found at that position.
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Workflow
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The analysis workflow for the run.
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