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What data types are provided with next-generation sequence submissions?

April 26, 2017Data next-generation provided sequence submissions types

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What data types are provided with next-generation sequence submissions?

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Processed sequence data files: GEO hosts processed sequence data files either within the Sample tables, or linked at the bottom of Sample and Series records as Supplementary files on the FTP site. Requirements for processed data files are not yet fully standardized and will depend on the nature of the study, but typically can include alignment, peak, and/or count data. Raw sequence data files: Raw data are uploaded to NCBI’s Sequence Read Archive (SRA) database, and linked from the bottom of Sample and Series records. The SRA database has ceased to generate static ‘fastq’ format dumps for download. Instead, data are made available in ‘sra’ format, which users can download and convert into their desired format using the SRA SDK toolkit. For more information, see the SRA Download Guide. If you have questions about SRA format or the SRA toolkit, please contact the SRA team at sra@ncbi.nlm.nih.gov.