• LAS

  • Referenced in 18 articles [sw17180]
  • exploratory analysis of high dimensional data. Biclustering methods search for sample-variable associations ... propose and evaluate a statistically motivated biclustering procedure (LAS) that finds large average submatrices within ... validation study examines quantitative properties of biclusters, biological and clinical assessments using auxiliary information ... classification of disease subtypes using bicluster membership. In addition, we carry out a simulation study...
  • BicAT

  • Referenced in 16 articles [sw12371]
  • BicAT (Biclustering Analysis Toolbox) .BicAT is a graphical user interface software for the analysis ... gene expression data. It provides five biclustering and two standard clustering algorithms. BicAT works ... Windows, Solaris, Linux and Mac OS. BicAT (Biclustering Analysis Toolbox) is a software tool which ... graphical user interface for several existing biclustering and clustering algorithms. The main purpose...
  • biclust

  • Referenced in 12 articles [sw15089]
  • toolbox for bicluster analysis in R. biclust: BiCluster Algorithms. The main function biclust provides several ... algorithms to find biclusters in two-dimensional data: Cheng and Church, Spectral, Plaid Model, Xmotifs ... normalization and discretisation), visualisation, and validation of bicluster solutions...
  • FABIA

  • Referenced in 9 articles [sw23382]
  • FABIA Biclustering Software: Factor Analysis for Bicluster Acquisition (FABIA) is a model-based technique ... biclustering, that is clustering rows and columns simultaneously. FABIA is a multiplicative model that assumes ... determine the information content of each bicluster to separate spurious biclusters from true biclusters ... data sets with known true, artificially implanted biclusters, FABIA clearly outperformed all 11 competitors. FABIA...
  • EXPANDER

  • Referenced in 8 articles [sw30158]
  • suitable for NGS data analysis); Clustering and biclustering; Down-stream enrichment analyses of: GO functional...
  • BicSPAM

  • Referenced in 3 articles [sw29972]
  • BicSPAM: flexible biclustering using sequential patterns. Background: Biclustering is a critical task for biomedical applications ... Order-preserving biclusters, submatrices where the values of rows induce the same linear ordering across ... constant, shifting, scaling and sequential assumptions. Additionally, biclustering approaches relying on pattern mining output deliver ... with an arbitrary number and positioning of biclusters. However, existing order-preserving approaches suffer from...
  • blockcluster

  • Referenced in 7 articles [sw17883]
  • rows and columns, usually designated by biclustering, co-clustering or block clustering, is an important...
  • MTBA

  • Referenced in 3 articles [sw20769]
  • MTBA: Matlab toolbox for biclustering analysis- Biclustering is a popular approach to analyze patterns ... biological origin such as gene expression data. Biclustering performs better than classical clustering techniques under ... toolbox designed to perform a variety of biclustering algorithms under a common user interface. Although ... some implementations are available for the proposed biclustering algorithms, each program is accompanied...
  • BicPAM

  • Referenced in 3 articles [sw26972]
  • BicPAM: Pattern-based biclustering for biomedical data analysis. Biclustering, the discovery of sets of objects ... allowed type, number and quality of biclusters. Contrasting, recent biclustering approaches relying on pattern mining ... exhaustively discover flexible structures of robust biclusters. However, these approaches are only prepared to discover ... constant biclusters and their underlying contributions remain dispersed...
  • BiVisu

  • Referenced in 3 articles [sw11371]
  • BiVisu: software tool for bicluster detection and visualization. Summary: BiVisu is an open-source software ... tool for detecting and visualizing biclusters embedded in a gene expression matrix. Through ... additive-related as well as multiplicative-related biclusters. The biclustering results are then visualized under ... particular, parallel coordinate (PC) plots for each bicluster are displayed, from which objective and subjective...
  • bioNMF

  • Referenced in 6 articles [sw14438]
  • this new methodology. This includes clustering and biclustering gene expression data, protein sequence analysis, text...
  • Bsig

  • Referenced in 2 articles [sw29970]
  • Bsig: evaluating the statistical significance of biclustering solutions. Statistical evaluation of biclustering solutions is essential ... analysis without a proper statistical ground. Most biclustering methods rely on merit functions to discover ... biclusters with specific homogeneity criteria. However, strong homogeneity does not guarantee the statistical significance ... biclustering solutions. Furthermore, although some biclustering methods test the statistical significance of specific types...
  • BAT

  • Referenced in 2 articles [sw20499]
  • biclustering analysis toolbox. In this paper, a new biclustering analysis toolbox called BAT, which ... based on the BiHEA (Biclustering via a Hybrid Evolutionary Algorithm), is presented. The BiHEA ... search technique in order to perform microarray biclustering. This method simultaneously considers several goals ... giving as a result a set of biclusters that present a satisfactory trade-off between...
  • BiGGEsTS

  • Referenced in 2 articles [sw23417]
  • tool providing an integrated environment for the biclustering (Madeira and Oliveira, 2004) analysis of time ... scientific community state of the art biclustering algorithms (Madeira et al., 2010) (Madeira and Oliveira ... specific subsets of experimental conditions, that is, biclusters. Biclusters may be analyzed with Gene Ontology...
  • BicNET

  • Referenced in 2 articles [sw29989]
  • discovery in large-scale biological networks using biclustering. Methods: This work proposes Biclustering NETworks (BicNET ... biclustering algorithm to discover non-trivial yet coherent modules in weighted biological networks with heightened ... constant, symmetric, plaid and order-preserving biclustering models. Second, we propose an algorithm to discover...
  • SOFAR

  • Referenced in 4 articles [sw31665]
  • unsupervised and supervised learning tasks, such as biclustering with sparse singular value decomposition, sparse principal...
  • BicPAMS

  • Referenced in 2 articles [sw29990]
  • biological data analysis with pattern-based biclustering. BicPAMS is a powerful and flexible tool ... contributions on pattern-based biclustering (including BicPAM, BicNET, BicSPAM, BiC2PAM, BiP, DeBi and BiModule ... efficiently discover exhaustive and flexible structures of biclusters, with parameterizable coherency and robustness to noise...
  • EDISA

  • Referenced in 2 articles [sw30026]
  • EDISA: extracting biclusters from multiple time-series of gene expression profiles. Results: In this work ... these modules are essentially different types of biclusters. Conclusion: We successfully applied the EDISA...
  • bibench

  • Referenced in 2 articles [sw32067]
  • Python library designed to simplify biclustering tasks. It provides the following features: Supports many biclustering...
  • BiMine+

  • Referenced in 1 article [sw26971]
  • BiMine+: An efficient algorithm for discovering relevant biclusters of DNA microarray data. Biclustering ... conditions. In this paper, we propose a biclustering algorithm, called BiMine+, which is able ... detect significant biclusters from gene expression data. The proposed algorithm is based on two original ... tree structure, called Modified Bicluster Enumeration Tree (MBET), on which biclusters are represented...