Table 2. The biclustering methods specifications and testing data types.
Bicluster Method | Method specifications | Tested data |
ACV | GSOVL | Synthetic, yeast |
Bayesian Plaid | GSOVL, MCMC, BAYES | Synthetic, yeast |
Bimax | GSOVL, DISC | Synthetic, yeast |
BiMine | GSOVL, TREE | Synthetic, yeast |
CC | GSOVL | Synthetic, Human, yeast |
CMonkey | GSOVL, MCMC, MOTIF, TMV | Synthetic, yeast |
CTWC | GSOVL,SIMA | Human |
DCC | NOVL, VECOS | Human |
FABIA and FABIAS | GSOVL, EM, BAYES, SVD | Synthetic, Human |
FLOC | GSOVL, TMV | Synthetic, Human |
GEMS | GSOVL, MCMC | Synthetic, Human |
Gibbs biclustering | GSOVL, DISC, MCMC, BAYES | Synthetic, Human |
ISA | GSOVL | Synthetic, yeast |
ITWC | SOVL, VECOS | Human |
OP-Clustering | GSOVL, TREE | Yeast, Human |
OPSM | GSOVL, DISC | Synthetic, yeast [43], Human |
Plaid | GSOVL, FUZZY [31] | Synthetic, Human, yeast |
ProBic | GSOVL, EM, BAYES, TMV | Synthetic, yeast |
QUBIC | GSOVL | Synthetic, yeast, e. coli, Human |
R/MSBE | GSOVL | Synthetic, yeast |
SAMBA | GSOVL, DISC | Yeast, Human |
Spectral | NOVL,SVD | Human |
TreeBic | GSOVL, MCMC, BAYES, TREE | Human |
UBCLUST | GSOVL, DISC, MCMC, SIMA | Synthetic, yeast |
XMOTIF | GSOVL | Synthetic [43], Human, yeast [43] |
ZBDD | GSOVL | Synthetic, yeast |
-clustering | NOVL | Synthetic |
-Pclustering | GSOVL | Synthetic, yeast |
-jk | GSOVL | Synthetics, Human |
The methods specifications are described in Table 3. Although the original FLOC algorithm is tolerant to missing values (TMV), the R implementation available in BicARE (V 1.2.0) of the Bioconductor package does not accept missing values in input data. Note that all the tested data with missing citations were studied by the developers of the algorithms to which they have been assigned. For the citation of the algorithms see Table 1.