Athurva Gore/LabNotes/2009-9-23: Difference between revisions

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>Ajgore
(New page: {{ AGLabEntry|2009-8-22|2009-8-24 }} =Presentation= * September 23 Lab Meeting: * http://docs.google.com/present/edit?id=0AZnKSQ9Jqu6_ZDVqcWd6cF85OGRmaHdiaGdu&hl=en =Probe Generation= * B...)
 
>Ajgore
 
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{{ AGLabEntry|2009-8-22|2009-8-24 }}
{{ AGLabEntry|2009-9-22|2009-9-24 }}
=Presentation=
=Presentation=
* September 23 Lab Meeting:
* September 23 Lab Meeting:
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=Probe Generation=
=Probe Generation=
* Baylor CaptureProbe set is done.
* Baylor CaptureProbe set is done.
* Uploaded to Wiki at: '''REPLACE WITH FILENAME'''
* Uploaded to Wiki at: [[http://genome-tech.ucsd.edu/LabNotes/upload/4/46/PROBESET_Baylor_CaptureProbe_Output.txt]]
* Email Dr. Zhang so he can order probes.
* Email Dr. Zhang so he can order probes.
=Exome Project=
* Need to check coverage with combined reads.
** On genome-miner, combining reads into one file.  Then run mapping.  What regions do we cover?  Extract ranges from pileup file, see what Exons we miss consistently.
** Get average coverage for each exon?
* Do we get any regions with very low coverage?  These will need to be redone.

Latest revision as of 23:29, 23 September 2009

Navigation[edit]

Presentation[edit]

Probe Generation[edit]

  • Baylor CaptureProbe set is done.
  • Uploaded to Wiki at: [[1]]
  • Email Dr. Zhang so he can order probes.

Exome Project[edit]

  • Need to check coverage with combined reads.
    • On genome-miner, combining reads into one file. Then run mapping. What regions do we cover? Extract ranges from pileup file, see what Exons we miss consistently.
    • Get average coverage for each exon?
  • Do we get any regions with very low coverage? These will need to be redone.