Bootstrapped ROC

The bROC plugin deploys in CLC Main Workbench and CLC Genomics Workbench.

ROC (receiver operating characteristic) is a generally applicable, non-parametric procedure that provides insight into the discriminatory properties of data features for a binary classifier. However, the method is not efficient for gene expression experiments as they generally do not produce a sufficient number of samples. bROC overcomes that limitation by resampling (bootstrapping) the expression data to produce a large number of simulated measurements that preserve the statistical properties of the original data.

Thus, bROC can produce detailed curves of sensitivity (probability of true positive detection) vs 1-specificity (probability of false positive detection) for all features of interest. CONF = 2 AUC – 1, where AUC is the area under ROC curve, is the primary statistics used for detection of regulated features (probes/genes).

Version 3 (August 2013) includes data normalization and graphical outputs.

Benefits

  • Works particularly well for experiments with a small number of experimental/biological replicates
  • Includes data normalization (for RNA-seq, mainly)
  • When combined with RNA-seq analysis (QIAGEN Bioinformatics), provides complete differential expression analysis workflow for RNA-seq data
  • Graphical outputs facilitate interpretation of results
  • With no user-selectable parameters – the algorithm is easy to use
  • Non-parametric approach is applicable to all platforms producing expression data for a large number of features (transcripts, genes)

Downloads


Plugin Manual

Download manual

Plugin Downloads

Download plugin

Download Bootstrapped ROC


Version

Platform support

Download

3.3.0

Biomedical Genomics Workbench


 [3.5, 3.0.1, 3.0]

CLC Genomics Workbench


 [9.5, 9.0.1, 9.0]

CLC Main Workbench


 [7.7.2, 7.7.1, 7.7]

3.2.9

Biomedical Genomics Workbench


 [2.5.3, 2.5.2, 2.5.1, 2.5, 2.1.2, 2.1.1, 2.1]

CLC Genomics Workbench


 [8.5.3, 8.5.2, 8.5.1, 8.5, 8.0.3, 8.0.2, 8.0.1, 8.0]

CLC Main Workbench


 [7.6.6, 7.6.5, 7.6.4, 7.6.3, 7.6.2, 7.6.1, 7.6]

3.2.0

CLC Genomics Workbench


 [7.5.5, 7.5.4, 7.5.3, 7.5.2, 7.5.1, 7.5]

CLC Main Workbench


 [7.5.3, 7.5.2, 7.5.1, 7.5]

3.1.0

CLC Genomics Workbench


 [7.0.4, 7.0.3, 7.0]

CLC Main Workbench


 [7.0.3, 7.0.2, 7.0]

3.0.3

CLC Genomics Workbench


 [6.5.2, 6.5.1, 6.5]

CLC Main Workbench


 [6.9.2, 6.9.1, 6.9]

2.1.0

CLC Genomics Workbench


 [6.0.5, 6.0.4, 6.0.3, 6.0.2, 6.0.1, 6.0]

CLC Main Workbench


 [6.8.4, 6.8.3, 6.8.2, 6.8.1, 6.8]

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