slide1
Download
Skip this Video
Download Presentation
Sequence Read Archive (SRA)

Loading in 2 Seconds...

play fullscreen
1 / 6

Sequence Read Archive (SRA) - PowerPoint PPT Presentation


  • 174 Views
  • Uploaded on

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

loader
I am the owner, or an agent authorized to act on behalf of the owner, of the copyrighted work described.
capcha
Download Presentation

PowerPoint Slideshow about ' Sequence Read Archive (SRA)' - unity


An Image/Link below is provided (as is) to download presentation

Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -
Presentation Transcript
slide1

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).

slide2

3

SRA data upload / download

SRA-FileUploader / SRA-FileDownloader

http://asperasoft.com/

slide4

5

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
slide5

Status transitions

Private

Cancel

Draft

Public

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

slide6

7

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]

ad