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QUBICClusterer

Qualitative 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)
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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,
seed=1


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