Which files are required and optional when creating a GenomeStudio project?
Required files for creating a GenomeStudio project:
Red and green intensity data (*.idat) files for each sample; are contained in scan folders with barcode names.
Manifest file (*.bpm) containing Bead IDs and Single Nucleotide Polymorphism (SNP) information for each marker on the array.
A commercial BeadChip manifest can be downloaded from the product-specific Illumina Support page under Product Files.
A consortium/custom BeadChip manifest can be downloaded from MyIllumina using a custom product file search.
For methylation projects, the Sentrix Descriptor File (*.sdf) inside the scan folder is required.
Optional files for creating a GenomeStudio project:
Cluster file (*.egt) containing expected cluster positions for each marker on the array.
A commercial BeadChip cluster file can be downloaded from the product-specific Illumina Support page under Product Files.
A consortium/custom BeadChip cluster file is not available on the website and must be generated using GenomeStudio.
Sample sheet (*.csv) containing user-specified sample information.
A sample sheet template can be downloaded from the product-specific Illumina Support page under Support Files.
For methylation projects, a cluster file is not used.
Summary Table
File type
Genotyping GenomeStudio 2.0
Methylation GenomeStudio 2011
Intensity data files (*.idat)
Required
Required
Manifest file (*.bpm)
Required
Required
Cluster file (*.egt)
Optional
Not used
Sample sheet (*.csv)
Optional
Optional
Sentrix descriptor file (*.sdf)
Not used
Required
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