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CEGS HiSeq Services
For help contact mnajarian@cs.unc.edu
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Welcome to CEGS sequence analysis web framework

This website is a data repository, sequence analysis pipeline, and results visualization tool. Raw and processed sequence data is accessible from the links located below the banner image. You must be a registered user to access these resources (click log in above and choose the register link). Visualization tools are provided in the menu on the left.


Status

    [5/11/2012]
    FG_0122_M sample is updated. The Bam file on the ftp server, the google docs spreadsheet, and the md5 checksums have been updated. Previously, one of the lanes was missing.


    [5/10/2012]
    The Google spreadsheet has been updated. A "gh_F and M" table was added to show statistics broken down on a per lane basis for 2 samples. Old master table was also removed.


    [5/8/2012]
    The BAM files for the inbred samples were updated with correct reference positions.


    [5/7/2012]
    The latest bam files can be downloaded via ftp with these md5 checksums. The bamfile read statistics are in this Google Docs spreadsheet.


Tools to map Network Drive

 


Description of Annotation Tags

 

  • YM: number of maternal snps detected
  • YP: number paternal snps detected
  • Ym: number of maternal indels detected
  • Yp: number of maternal indels detected
  • YE: Number of mismatches explained by the snps
  • YA: is one of 1,2 or 3 meaning:
    1. the read only aligned to the maternal pseudo genome 
    2. the read only aligned to the paternal pseudo genome 
    3. the read aligned to both genomes
  • Note that YM,YP  reflect the combined counts for both reads of a paired-end template.


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© 2010 Leonard McMillan, Alex Jackson and UNC Computational Genetics