Up: Component summary
Up: Component summary
Component
QUBICClustererQualitative biclustering algorithm (QUBIC). https://bioconductor.org/packages/release/bioc/html/QUBIC.html
| Version | 1.0 |
|---|---|
| Bundle | tools |
| Categories | Clustering |
| Authors | Juha Koiranen (juha.koiranen@helsinki.fi) |
| Issue tracker | View/Report issues |
| Requires | R ; installer (bash) |
| Source files | component.xml qubic.R |
| Usage | Example with default values |
Inputs| Name | Type | Mandatory | Description |
|---|---|---|---|
| in | CSV | Mandatory | Tab separated file containing the expression data. The matrix should contain row names (genes) as well as column names (conditions). |
Outputs| Name | Type | Description |
|---|---|---|
| rowClust | CSV | Tab separated file containing biclustering result for rows |
| colClust | CSV | Tab separated file containing biclustering result for columns |
Parameters| Name | Type | Default | Description |
|---|---|---|---|
| method | string | "BCCC" | Type of clustering method to use. Possible options are "BCCC", "BCQU", "BCXmotifs", "BCPlaid", "BCSpectral", "BCBimax" and "BCQues" Default is "BCCC". |
| seed | int | 0 | Seed for the random number generator. If set to 0, the generator won't be seeded. |
Test cases| Test case | Parameters▼ | IN in |
OUT rowClust |
OUT colClust |
||
|---|---|---|---|---|---|---|
| case1 | properties | in | rowClust | colClust | ||
|
method=BCPlaid, |
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