Sequence read archive sra
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2. Sequence Read Archive (SRA). NGS reads and alignments mostly in BAM Manages high-throughput data including sequence variation (VCF) Data owned by the submitter, expected to be made public and

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Sequence Read Archive (SRA)

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Sequence read archive sra

  • 2

Sequence Read Archive (SRA)

NGS reads and alignments mostly in BAM

Manages high-throughput data including sequence variation (VCF)

Data owned by the submitter, expected to be made public and

freely without any restrictions. Pre-publication confidentiality is

supported.

Keep Metadata(stored as XML format) separate from data (in different formats).


Sequence read archive sra

  • 3

SRA data upload / download

SRA-FileUploader / SRA-FileDownloader

http://asperasoft.com/


Sequence read archive sra

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SRA data formats

  • As of now the recommended format is BAM

  • Other accepted formats

    • General Fastq,

    • SRF

    • Illumina native fastq

    • SOLiD native csfasta/qual

    • 454 sff,

    • IonTorrent sff,

    • PacBio HDF5,

    • Complete Genomics Data package

    • CRAM (very soon)

  • Binary data formats should be compressed

  • MD5 of data files are required


Sequence read archive sra

Status transitions

Private

Cancel

Draft

Public

http://www.ebi.ac.uk/ena/about/data_availability_policy


Sequence read archive sra

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Documentation

  • Subscribe to ena-announce mailing list:

    • http://listserver.ebi.ac.uk/mailman/listinfo/ena-announce

  • General submission instructions:

    • http://www.ebi.ac.uk/ena/about/sra_submissions

  • SRA data formats:

    • http://www.ebi.ac.uk/ena/about/sra_format

  • SRA metadata preparation:

    • http://www.ebi.ac.uk/ena/about/sra_preparing_metadata

  • Uploading data:

    • http://www.ebi.ac.uk/ena/about/sra_data_upload

  • SRA REST webservice:

    • http://www.ebi.ac.uk/ena/about/sra_rest_submissions

      Please email us with questions [email protected]


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