Computing

General

• CGI - Common Gateway Interface (server-side web programming)
• Cluster
• CSS - Cascading Style Sheets
• Eclipse
• Emacs
• Firefox
• Java
• Javascript
• Linux - various resources
• MySQL
• Perl
• PHP
• PPT to PDF on a Mac
• Python
• Ruby
• Software for papers, posters and talks
• SSH - Secure Shell
• SSL - Secure Socket Layer
• Subversion (SVN) version control system
• VectorNTI

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• DiceWare offers a better way to create a strong, yet easy to remember passphrase for use with encryption and security programs
• Code2HTML converts a program source code to syntax highlighted HTML
• Regular Expressions - tutorial and examples in various languages (a.k.a. regexp.info)
• ILoveJackDaniel's - web design and development reference
• TechCheatSheets.com - technology and programming quick reference
• Google Code Search helps you find function definitions and sample code by giving you one place to search publicly accessible source code hosted on the Internet
• gotAPI.com - the most comprehensive API collection on the web
  • start.gotapi.com - alternative search interface

Scientific

• In silico protocols on OWW
• Software Carpentry - this course is an intensive introduction to basic software development practices for scientists and engineers that can reduce the time they spend programming by 20-25%.
• Graphing high dimensional data
• MATLAB
  • MATLAB_Computational_Biology_Tools
• R for Statistical Computing
• The Really Easy Statistics Site
• Modeller
• Microfootprinter
• Genamics SoftwareSeek links to biotechnology software
• LIMS - Laboratory Information Management Systems
• bioPIXIE is a novel system for biological data integration and visualization that allows the user to discover interaction networks and pathways in which the user's gene(s)of interest participate
• PerlPrimer - open-source PCR primer design (Windows and Linux)
• EnzymeX is a program for molecular biologists, developed to help you determine which restriction enzymes you should use to cut your DNA of interest
• Papers allows find, download, archive, and organize all your articles within a single application
• 4Peaks is a program that helps molecular biologists to visualize and edit their DNA sequence files
• LabAssistant is a scientific program developed to help you organize your experiments instead of using multiple timers, stickies, and a labjournal that you have to organize all manually
• iRNAi is a tool to help scientists quickly design error free oligos

MIT

• Athena - AFS lockers, Kerberos tickets, user accounts
• BioMicro Center - DNA-NET accounts and file storage
• BioMicro Cluster
• Xgrid@MIT - join the grid and donate or borrow CPU cycles
• OpenMacGrid by MacResearch is a computing grid built up entirely of Macs using Apple's Xgrid technology
• ChemDraw Ultra
  • BioDraw tools for drawing, sharing, and presenting biological pathways are included with ChemDraw. Common pathway elements (membranes, DNA, enzymes, receptors, reaction arrows, etc.) are built in and other elements may be imported.
• Spam screening help page
• Spam Screening Personalized Settings
• the infrastructure group @ csail - useful MIT computing info though a lot of it is specific CSAIL
• MIT Network and Infrastructure Team - network maps, etc
• MIT IT Partners