Ylaine/2009-8-26: Difference between revisions

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>Ylaine
(New page: ==Clustering== * Re-ran clustering with similar results. Only difference is 1 false SNP that was accepted in the first round instead of the second round. Image:Aug17_nodbSNP.jpg [[Imag...)
 
>Ylaine
Line 5: Line 5:
[[Image:Aug17_cluster2.jpg]]
[[Image:Aug17_cluster2.jpg]]
* Commands:
* Commands:
[error, groups] = snpCluster(match,miss);
** 328 accepted, 3102 rejected, total error rate of 8.45% (46.46% MD, 1.42% FP)
** 287 true and 41 false
groups_match = groups(1:536);
rejects_match = match(find(groups_match==2),:);
groups_miss = groups(537:3430);
rejects_miss = miss(find(groups_miss==2),:);
[error, groups2] = snpCluster(rejects_match, rejects_miss);
** 214 accepted, 2888 rejected, total error rate of 6.61% (48.19% MD, 2.98% FP)
** 129 true and 85 false


* Validate method on another test set
* Validate method on another test set

Revision as of 21:23, 26 August 2009

Clustering

  • Re-ran clustering with similar results. Only difference is 1 false SNP that was accepted in the first round instead of the second round.

File:Aug17 nodbSNP.jpg File:Aug17 cluster1.jpg File:Aug17 cluster2.jpg

  • Commands:
[error, groups] = snpCluster(match,miss);
    • 328 accepted, 3102 rejected, total error rate of 8.45% (46.46% MD, 1.42% FP)
    • 287 true and 41 false
groups_match = groups(1:536);
rejects_match = match(find(groups_match==2),:);
groups_miss = groups(537:3430);
rejects_miss = miss(find(groups_miss==2),:);

[error, groups2] = snpCluster(rejects_match, rejects_miss);
    • 214 accepted, 2888 rejected, total error rate of 6.61% (48.19% MD, 2.98% FP)
    • 129 true and 85 false
  • Validate method on another test set

False Negatives

Poster

  • Determine whom to acknowledge for experimental results