letter98
04-08-2011, 06:11 PM
All software package made by our lab might possibly be downloaded and put into use at no cost of charge by academic and other non-profit researchers. Business utilization of the ScanAlyze, Cluster and/or TreeView executable and/or source code requries a license from Stanford University. For data regarding how to acquire a license, make sure you click here.
Business utilization of the GMEP application calls for a license from Lawrence Berkeley Nationwide Lab.
For information regarding how to get hold of a license, make sure you get in touch with LBNL's Technology Transfer Division. Register Here Registration is complimentary, and is used to track use and also to produce software updates. Registration will not be required to download computer software.
Microarray Image Analysis ScanAlyze [Download] [Previous versions]:
System fluorescent images of microarrays. Consists of semi-automatic definition of grids and complex pixel and spot analyses. Outputs to tab-delimited text files for transfer to any database. Written by Michael Eisen. For Windows only. Manual. Source Code.
Latest version two.50. Up-to-date November 27,Windows 7 Ultimate (http://www.windows-7-key.in/),2002.
Cluster Analysis and Visualization Cluster and TreeView are an integrated pair of applications for analyzing and visualizing the results of complex microarray experiments. Each created by Michael Eisen.
Cluster [Download] [Previous versions]: Carry out numerous forms of cluster evaluation and other kinds of processing on huge microarray datasets. Now comes with hierarchical clustering, self-organizing maps (SOMs),Windows 7 Discount (http://www.windows7-key.org/), k-means clustering,Purchase Windows 7 (http://www.windows7-key.ca/), principal element evaluation.Hierarchical clustering strategies described in Eisen et al. (1998) PNAS 95:14863. For Windows only.
Recent version two.eleven. .
Manual. Source Code. Demo Data.
Michiel de Hoon in the University of Tokyo has established a model of Cluster (termed Cluster 3.0) that implements a similar algorithms as my software package, but will run on Windows, Mac OS X, Linux and UNIX. It's obtainable right here.
FuzzyK [Download]
FuzzyK is mostly a C++ command line program that can carry out fuzzy k-means clustering on gene expression data. See Gasch AP and Eisen MB (2002). Exploring the conditional coregulation of yeast gene expression thru fuzzy k-means clustering. Genome Biology three(eleven),Microsoft Office 2010 Pro (http://www.office-2010-key.de/), 1-22.
TreeView [Download] [Previous versions]: Graphically browse outcome of clustering along with other analyses from Cluster. Supports tree-based and picture based mostly searching of hierarchical trees. A variety of output formats for era of images for publications. For Windows only.
Current edition 1.60. Up to date December six, 2002. Maple Tree [Download]
Maple Tree is a java-based,Microsoft Office Professional Plus (http://www.office2010-key.co.uk/), open source, cross-platform visualization instrument to graphically browse the results of clustering analyses from our Cluster and Fuzzy K clustering software programs, and many other clustering and analysis plans.
Maple Tree was formulated by Lisa Simirenko in our lab.
Combined Expression Data and Sequence Analysis GMEP [Download] (on the market for Unix only): Compute genome-mean expression profiles from expression
and sequence data. See Chiang et al. Bioinformatics 17(S1):49-55.
Sequence Analysis GATA [Download] (platform independent): Graphic Alignment Tool for Comparative Sequence Analysis. GATA was produced by David Nix within our lab.
TFEM [Download](ANSI C code): Transcription Aspect Expectation Maximization, an algorithm for detecting DNA regulatory motifs by incorperating positional trends in material information.
Business utilization of the GMEP application calls for a license from Lawrence Berkeley Nationwide Lab.
For information regarding how to get hold of a license, make sure you get in touch with LBNL's Technology Transfer Division. Register Here Registration is complimentary, and is used to track use and also to produce software updates. Registration will not be required to download computer software.
Microarray Image Analysis ScanAlyze [Download] [Previous versions]:
System fluorescent images of microarrays. Consists of semi-automatic definition of grids and complex pixel and spot analyses. Outputs to tab-delimited text files for transfer to any database. Written by Michael Eisen. For Windows only. Manual. Source Code.
Latest version two.50. Up-to-date November 27,Windows 7 Ultimate (http://www.windows-7-key.in/),2002.
Cluster Analysis and Visualization Cluster and TreeView are an integrated pair of applications for analyzing and visualizing the results of complex microarray experiments. Each created by Michael Eisen.
Cluster [Download] [Previous versions]: Carry out numerous forms of cluster evaluation and other kinds of processing on huge microarray datasets. Now comes with hierarchical clustering, self-organizing maps (SOMs),Windows 7 Discount (http://www.windows7-key.org/), k-means clustering,Purchase Windows 7 (http://www.windows7-key.ca/), principal element evaluation.Hierarchical clustering strategies described in Eisen et al. (1998) PNAS 95:14863. For Windows only.
Recent version two.eleven. .
Manual. Source Code. Demo Data.
Michiel de Hoon in the University of Tokyo has established a model of Cluster (termed Cluster 3.0) that implements a similar algorithms as my software package, but will run on Windows, Mac OS X, Linux and UNIX. It's obtainable right here.
FuzzyK [Download]
FuzzyK is mostly a C++ command line program that can carry out fuzzy k-means clustering on gene expression data. See Gasch AP and Eisen MB (2002). Exploring the conditional coregulation of yeast gene expression thru fuzzy k-means clustering. Genome Biology three(eleven),Microsoft Office 2010 Pro (http://www.office-2010-key.de/), 1-22.
TreeView [Download] [Previous versions]: Graphically browse outcome of clustering along with other analyses from Cluster. Supports tree-based and picture based mostly searching of hierarchical trees. A variety of output formats for era of images for publications. For Windows only.
Current edition 1.60. Up to date December six, 2002. Maple Tree [Download]
Maple Tree is a java-based,Microsoft Office Professional Plus (http://www.office2010-key.co.uk/), open source, cross-platform visualization instrument to graphically browse the results of clustering analyses from our Cluster and Fuzzy K clustering software programs, and many other clustering and analysis plans.
Maple Tree was formulated by Lisa Simirenko in our lab.
Combined Expression Data and Sequence Analysis GMEP [Download] (on the market for Unix only): Compute genome-mean expression profiles from expression
and sequence data. See Chiang et al. Bioinformatics 17(S1):49-55.
Sequence Analysis GATA [Download] (platform independent): Graphic Alignment Tool for Comparative Sequence Analysis. GATA was produced by David Nix within our lab.
TFEM [Download](ANSI C code): Transcription Aspect Expectation Maximization, an algorithm for detecting DNA regulatory motifs by incorperating positional trends in material information.