Athurva Gore/LabNotes/2010-3-24

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Revision as of 21:19, 24 March 2010 by >Ajgore (→‎Indel Calling)
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Plan for Today

  • Indel calling - run scripts
    • CV-iF/CV-F and DF6/FS Exome data
    • Nimblegen data (whatever is available)
  • BSPP Neural Network
    • Assemble Cpg97k data, BS_FirstExon data; see how this NN looks

IPS Mutation Paper

Indel Calling

Data to assemble

Flowcell CV-F CV-iF DF6 FS
HL020 s3, s4 s1, s2
HL022 s1, s2 s3, s4
HL023 s5, s6 s7, s8
HL025 s6 s7
HL026 s1 s5 s6 s7
HL036 s1 (NimbleGen) s4 (NimbleGen)
HL037 s3 (NimbleGen) s8 (NimbleGen)

Procedure

  • Merged CV-iF, CV-F, DF6, and FS
    • Running mapping+velvet script on CV-iF and CV-F
  • Still need to merge NimbleGen data

BSPP Neural Network