DOCUMENTATION OVERVIEW

Syntax and Tutorials.

• Introduction to SPIDER.
• Tutorial for Getting started with SPIDER.
• The User Manual contains guide to the SPIDER system, describing conventions and syntactical rules.
• The Tutorial is a teaching guide for using for the SPIDER system.
• How to place SPIDER processes in the background or in a batch.

SPIDER Operations.

• An alphabetical list of operations and a task list of operations.
• Each operation is described in a seperate HTML manual file in directory: SPIDER_DIR/docs/man/.
  For example, the windowing operation 'WI' is described in SPIDER_DIR/docs/man/wi.html. Each operation is also described in a seperate plain text file in directory: SPIDER_DIR/man/ which is used as a source for building the HTML manual pages.
  

• During a SPIDER session, all manual pages may be accessed at the operation prompt by entering a "?" after the operation, e.g. "WI ?". Inside an operation, help can be obtained by typing "?" at any input prompt. Manual chapters will be displayed in your SPIDER terminal window.

• The Techniques page provides an index to in depth coverage of methods of using SPIDER including topics like: Particle Picking, Contrast Transfer Function Correction, Alignment, Multvariate Statistics, and many other methods. See that index for further details.

• SPIDER image file description.
• SPIDER Fourier transform file.
• SPIDER Euler angle conventions.
• SPIDER document files.
• Color look-up table files used by WEB.

• Information for prospective SPIDER users.

• Howto install SPIDER on Linux, on SGI, on DEC UNIX & on Windows.
• Howto compile and link SPIDER on Linux & on SGI Irix.

• Index to WEB documentation.
• Web installation on Linux & on SGI Irix.
• Index to JWEB (Java implementation of Web) documentation.

• New features or changes in operation usage.
• Frequently asked questions for SPIDER and Web.
• A philosophy of the single particle approach to 3D reconstruction.
• SPIRE (SPIDER Reconstruction Engine).
• PubSub (SPIDER's System for distributed parallel computation on clusters).
• RVBC (Resource for Visualization of Biological Complexity).
• STERECON (Stereo Contour Reconstruction System for Microscopy Data).
• Some relevant WWW Sites.