Keyserver-Controlled Software for Windows You need to have a CMGM/PMGM computer account and your computer must be registered with the Bioinformatics Resource in order to download and use this software. Go to the GettingStarted page if you need a computer account or need to register your computer with the Bioinformatics Resource. Software on this page will not work unless you have received an e-mail saying that your computer can now run the KeyServer licensed software. Unkeyed, site-licensed software is available at the bottom of this page. Also check out PCStanford for more software. The Windows operating system is available from ITSS Software Licensing. Older versions of software can be found here If you encounter any problems with the software, send your questions to CSBF HelpSU
		New Software : Stata 15 Keyed Software Software listed below is keyed and licensed for distribution to CMGM members only. A CMGM username and password is required to download the installers and your computer must be registered to run the software. Forgot your password or want to change it? Be sure to uncompress any zipped files using Stuffit Expander 32-bit or Stuffit Expander 64-bit and not the Windows UnZip utility. If you don't have a CMGM account, we invite you to sign up for one now!
		Biology and Chemistry Software Benchling - Molecular biology software (including CRISPR design) Additional Benchling Storage ChemBioOffice - Chemical Drawing and analysis software from CambridgeSoft CLCBio 5 - General purpose sequence analysis software from CLC Bio CLCBio Genomics Workbench - Process Illumina/454/Solid sequence data CLC Bio License Request Clone Manager 9.2 - PCR and Cloning Vector Construction from SciEd Soft   Discovery Studio 2.5.5 (3.7 Gb)- Chemical Structure and analysis software from Accelrys DS 2.5 Install Instructions DS 2 BLAST Databases (2 Gb compressed) DS 2 Modeler Database (2.5 Gb compressed) DNAstar LaserGene 14.1 Sequence analysis and Next Gen assembly. DNAstar License Files - Install after installing DNAstar version 13 DNAstar Online Support Galaxy - NextGen Sequence Analysis Gene Construction Kit 4 - GCK supplies a user-friendly graphic interface to manipulate complex plasmids and produce professional color illustrations. Gene Inspector - Lab Notebook with DNA/protein analysis from Textco. Geneious Pro - General purpose sequence analysis. Geneious Server - Used for NextGen data analysis GeneSpring - Microarray analysis software from Agilent. GeneSpring License Request and Download Genome Compiler - Cloning software Golden Helix - Used for NextGen variant analysis. GoldenHelix.com GREAT -Genomic Regions Enrichment of Annotations Tool - Bejerano lab, Stanford - Predicts target genes and biological functions of a set of cis-regulatory regions, such as ChIP-seq peaks. Ingenuity Pathway Analysis Biological Pathway analysis software from Ingenuity Kodak 1D Image Analysis (ver 4.0.3) - General purpose image analysisfor gels & blots from Kodak Kodak1D Install Instructions Oligo 6.86 Primer Analysis software for polymerase chain reaction (PCR), sequencing, site-directed mutagenesis, and various hybridization applications. Marvin - a collection of tools for drawing, displaying and characterizing chemical structures, queries, macromolecules and reactions Mascot - Mass Spec Fragment Analysis. From MatrixScience Mutation Surveyor - SNP detection software from SoftGenetics. NTSYSpc 2.1 - Phylogenetic Analysis software from Exeter Software   Partek 6 Genomic Suite - microarray analysis from Partek Partek Flow - NextGen assembly and analysis from Partek PEAKS - Mass Spec Fragment Analysis. From Bioinformatics Solutions Pipeline Pilot - For developing analysis workflows. From Accelrys PyMOL - Molecular visualization software. From Swain Chemical Library QLUCORE - Genomics analysis visualization software. From QLUCORE Sequencher 5.2.4 - NextGen Fragment assembly software from GeneCodes Sequencher 5.1 Sequencher from GeneCodes provides fragment assembly, indepth support for vector and transposon screening, ORF analysis, protein translations, restriction mapping, and heterozygote identifcation. (Doesn't work with Vista Home) External Tools Installer (MAQ, GNSNAP) SnapGene 3.2.1 - offers the fastest and easiest way to plan, visualize, and document your molecular biology procedures. from SnapGene Sybyl X 2.1.1 Molecular Modeling software from Tripos Sybyl Modules Available Vector NTI Suite 9 and 11 Full featured sequence anlaysis from Invitrogen Data Analysis Software Berkeley Madonna 8- Differential equation solver for dynamic system simulation from Berkeley Madonna DeltaGraph 5 - General purpose graphing program. - Needs QuickTime GraphPad Prism 7 & Lab Archives- Scientific Graphing & Statistics from GraphPad License expires March 31, 2018.   IGOR Pro 6.22 - Engineering graphing program from Wavemetrics JMP Genomics - Statistical Analysis of Genomics Data from SAS . Available for $65 from Stanford Software Licensing. JMP available for $10. Kaleidagraph 4.03 - New Version! LabVIEW - Graphical programming environment to develop sophisticated measurement, test, and control systems. Mathematica 10 - Mathematical analysis and modeling from Wolfram Mathematica 8 - Mathematical analysis and modeling from Wolfram Mathematica 9 - Mathematical analysis and modeling from Wolfram MatLab - Mathematical analysis and modeling from The MathWorks List of Toolboxes Origin Pro - Graphing and analysis from Origin Lab R - General purpose statistical analysis SigmaPlot 13 - General purpose graphing package from Systat. Includes SigmaStat SigmaPlot 12.5 - General purpose graphing package from Systat. Includes SigmaStat SPSS 20 - 32bit Download and install instructions (900 Mb) General purpose statistical analysis from SPSS SPSS 21 - 64bit Download and install instructions (994 Mb) General purpose statistical analysis from SPSS Stata 15- 64bit General purpose statistical analysis from Stata Systat - General purpose statistical software from SYSTAT Image Analysis Software   ImageJ General purpose image analysis (gels, blots, photomicrographs) from NIH Imaris 8.1.2 - General purpose confocal image analysis for microscope images from Bitplane License Request and Download Kodak 1D Image Analysis (ver 4.0.3) - General purpose image analysis for gels & blots from Kodak Kodak1D Install Instructions LX Proscope Software - General purpose image analysis for the ProScope. The ProScope is available for loan. Contact Us. Metamorph 7.7 - General purpose image analysis of microscope images from Molecular Devices Metamorph License Request and Download Phoretix - 2D Gel Analysis Software from nonlinear dynamics Step 1: Phoretix Security Disk- Step 2: Phoretix Installer Step 3: Phoretix License Installer - Install after Installing Phoretix Phoretix Evolution - 2 Color 2D Gel Analysis Software from nonlinear dynamics Step 1: Phoretix Evolution Installer (263 Mb) Step 2: Phoretix Tutorial Installer (150 Mb) Step 3: Phoretix License Request TotalLab Quant - 1D Gel, Colony, & Array Analysis Software from nonlinear dynamics VOLOCITY 5.1 - 3D image reconstruction software from Improvision Volocity License Request and Download Training available through CSIF General Purpose Office Programs Microsoft Office 2013 64-Bit only Microsoft Office 2013 32-Bit only - Available through Stanford ESS.   Microsoft Office 2010 64-Bit only (800 Mb)- The industry standard document creation suite. Includes PowerPoint (for presentations), Excel (spreadsheet), and Word, Outlook Microsoft Office 2010 32-Bit only (719 Mb)- The industry standard document creation suite. Includes PowerPoint (for presentations), Excel (spreadsheet), and Word, Outlook Microsoft Office 2007 (343 Mb)- The industry standard document creation suite. Includes PowerPoint (for presentations), Excel (spreadsheet), and Word, Outlook Microsoft Access 2007 - database program from Microsoft Microsoft One Note 2007 - electronic notebook (online info)   Microsoft Visio Pro - Graphics and Drawing (online info) Microsoft Visio Install Instructions Graphics & Page Layout Software Adobe Acrobat X CS5 Adobe Acrobat 9 CS4 Adobe Flash CS5 Adobe Fireworks CS4 Adobe InDesign CS2 (472Mb) Adobe InDesign CS4 (472Mb) Adobe Illustrator CS3 (1.18Gb) - If using Adobe Premiere, install Premiere first Adobe Illustrator CS4 (1.32Gb) Adobe Illustrator CS6-32bit (958 Mb) Adobe Illustrator CS6-64bit (1.1 Gb) Adobe Photoshop CS3 (555Mb) - If using Adobe Premiere, install Premiere first Adobe Photoshop CS4(1.4 Gb) Adobe Photoshop CS6-64bit(1.3 Gb) Adobe Photoshop CS6-32bit AutoCAD - AutoCAD is a 3D CAD design, drafting, modeling, architectural drawing, and engineering package. Free to students. Dragonframe - animation software (from Dragonframe)   Concept Draw Pro VI - Easy to use drawing from CS Odessa   Adobe Dreamweaver CS4 Adobe Dreamweaver CS6 Macromedia Fireworks 4.02 Adobe Premiere CS3 - (764Mb) Edit Quicktime-based movies and sound for web and/or presentation applications. Requires Quicktime 3, available at www.apple.com. Install Premiere before any other CS3 Adobe apps Adobe Premiere CS4 - (764Mb) Edit Quicktime-based movies and sound for web and/or presentation applications. Requires Quicktime 3, available at www.apple.com. SmartDraw Healthcare Edition - Drawing package with Netter Anatomical Image Database Adobe Pagemaker 6.5 PageMaker Install Instructions   Database Software EndNote X8 - works with Office 2011 and Windows 8 EndNote X7.2 - works with Office 2011 and Windows 8 EndNote X7 - works with Office 2011 and Windows 8 EndNote X6 - works with Office 2011 and Windows 7 EndNote X4 - works with Office 2011 and Windows 7 EndNote X3 - works with Office 2007 and Vista Reference Manager 12 - manage literature references from Thompson/Reuters FileMaker Pro 13 - database program from FileMaker FileMaker Pro 12 - database program from FileMaker FileMaker Pro 11 - database program from FileMaker Microsoft Access 2007 - database program from Microsoft FileMaker Murine Pathology Database - tracking data related to mouse studies, including (freezer records, image data, oligos, etc) Mendeley - Bibliographic Database licensed by Stanford Libraries Chemical Software and Databases at Swain Library - Cambridge Database, Chem Abstracts, SciFinder, etc Electronic Lab Notebooks Benchling - Molecular biology software and lab notebook Sparklix - Cloud based solution   OpenAtrium - Install on your own computer Unkeyed, Site-Licensed Software (also available at PCStanford site) Unkeyed, Freeware Software OpenOffice - The free competitor to Microsoft Office Notepad ++ - The free text editor for Windows Quartzy - Lab management software GIMP - image editor, like Photoshop, only free
		Last Updated: 08/23/2013