simu {hapFabia} | R Documentation

## Example simulation data for `hapFabia`

### Description

The data obtained by `simulateForFabia` in binary format.

### Usage

    simu

### Format

contains a list `simu` with variables

1. `namesL`,

2. `haploN`,

3. `snvs`,

4. `annot`,

5. `alleleIimp` which contains the information on the implanted IBD segment: sample names, number of chromosomes/individuals, number of tagSNVs, annotation of tagSNVs, the genotype data where 0 = reference an 1 = minor allele.

`annot` is a list with entries:

1. `chromosome`,

2. `position`,

3. `snvNames`,

4. `snvMajor`,

5. `snvMinor`,

6. `quality`,

7. `pass`,

8. `info`,

9. `fields`,

10. `frequency`, and

11. `changed`.

### Source

from `simulateForFabia`

### 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 1.29.0 Index]