hapRes {hapFabia} | R Documentation

## Example result of `hapFabia`

### Description

Results of a `hapFabia` call. List containing

1. `mergedIBDsegmentList`: an object of the class `IBDsegmentList` that contains the extracted IBD segments that were extracted from two histograms with different offset.

2. `res`: the result of FABIA.

3. `sPF`: samples per loading of this FABIA result.

4. `annot`: annotation for the genotype data.

5. `IBDsegmentList1`: an object of the class `IBDsegmentList` that contains the result of IBD segment extraction from the first histogram.

6. `IBDsegmentList2`: an object of the class `IBDsegmentList` that contains the result of IBD segment extraction from the second histogram.

7. `mergedIBDsegmentList1`: an object of the class `IBDsegmentList` that contains the merged result of the first IBD segment extraction (redundancies removed).

8. `mergedIBDsegmentList2`: an object of the class `IBDsegmentList` that contains the merged result of the second IBD segment extraction (redundancies removed).

### Usage

    hapRes

### Format

List containing

1. `mergedIBDsegmentList`: an object of the class `IBDsegmentList` that contains the extracted IBD segments that were extracted from two histograms with different offset.

2. `res`: the result of FABIA.

3. `sPF`: samples per loading of this FABIA result.

4. `annot`: annotation for the genotype data.

5. `IBDsegmentList1`: an object of the class `IBDsegmentList` that contains the result of IBD segment extraction from the first histogram.

6. `IBDsegmentList2`: an object of the class `IBDsegmentList` that contains the result of IBD segment extraction from the second histogram.

7. `mergedIBDsegmentList1`: an object of the class `IBDsegmentList` that contains the merged result of the first IBD segment extraction (redundancies removed).

8. `mergedIBDsegmentList2`: an object of the class `IBDsegmentList` that contains the merged result of the second IBD segment extraction (redundancies removed).

### Source

result of a call of `hapFabia`

### References

S. Hochreiter et al., ‘FABIA: Factor Analysis for Bicluster Acquisition’, Bioinformatics 26(12):1520-1527, 2010.

### See Also

`IBDsegment-class`, `IBDsegmentList-class`, `analyzeIBDsegments`, `compareIBDsegmentLists`, `extractIBDsegments`, `findDenseRegions`, `hapFabia`, `hapFabiaVersion`, `hapRes`, `chr1ASW1000G`, `IBDsegmentList2excel`, `identifyDuplicates`, `iterateIntervals`, `makePipelineFile`, `matrixPlot`, `mergeIBDsegmentLists`, `mergedIBDsegmentList`, `plotIBDsegment`, `res`, `setAnnotation`, `setStatistics`, `sim`, `simu`, `simulateIBDsegmentsFabia`, `simulateIBDsegments`, `split_sparse_matrix`, `toolsFactorizationClass`, `vcftoFABIA`

[Package hapFabia version 1.28.0 Index]