Library, Algorithms and Architecture

Organic form and nature...

On Growth and Form: The Complete Revised Edition by D'Arcy Wentworth Thompson - The classic
Patterns in Nature - by Peter S. Stevens
A new kind of Science - Quite an amazing publication by Stephen Wolfram. The book can be viewed online free from here.
The Algorithmic Beauty of Plants - A PDF download that is a great resource for L-systems, plant growth, etc. In addition there is a extensive library of papers at U of Calgary's Algorithmic Botany Page
Shapes by Philip Ball is supposedly picking up where D'Arcy Thompson left off.
Life's Other Secret: New Mathematics of the Living World - by Ian Stewart
Structure in Nature is a Strategy for Design by Peter Pearce
The Self-Made Tapestry: Pattern Formation in Nature ~ Philip Ball
Ernst Haeckel: Kunstformen der Natur 1899-1904 - HTML version of the book

Theory behind design and algorithms

The Possibility of (an) Architecture Collected Essays by Mark Goulthorpe, dECOi Architects By Mark Goulthorpe
Architectural Principles in the Age of Cybernetics By Christopher Hight
Rethinking Technology A Reader in Architectural Theory Edited by William W Braham, Jonathan A Hale

Practical studies in algorythmic form

Algorithmic Architecture ~ Kostas Terzidis
Architecture in the Digital Age Design and Manufacturing Edited by Branko Kolarevic
Innovative Surface Structures Technologies and Applications By Martin Bechthold
Autogenic Structures Edited by Evan Douglis
Practice Architecture, Technique and Representation, 2nd Edition By Stan Allen

Other Links of interest

you probably know Michael Hansmeyer site, but it's always worth to check it out again ;) http://www.mh-portfolio.com/ Kostas Terzidis is one of the major architects working on that subject; it would be nice to have something about him as well.
john frazer - an evolutionary architecture (http://www.aaschool.ac.uk/publications/ea/intro.html)
Malcolm McCullough - Digital Ground, Architecture, Pervasive Computing, and Environmental Knowing
Tomoko Sakamoto - From Control to Design: Parametric/Algorithmic Architecture
Benjamin Aranda - Christopher Lasch Tooling (Pamphlet Architecture)
the series of publications by the emtech at the AA school http://www.emtechlog.net/2007/04/published_books_and_magazines/
most of the work exhbited here: http://scriptedbypurpose.wordpress.com/ (was curated by skylar tibbits marc fornes of theverymany as mentioned above)
Kostas Terzidis was also on the Advisory Committee of the critical digital conference: http://isites.harvard.edu/icb/icb.do?keyword=k23421
Manuel de Landa is also worth reading. Deleuze and the Use of the Genetic Algorithm in Architecture
I found this website really usefull for computanional Theory really interesting. You can download all the publication in PDF format. Enjoy!!!! http://jeneratiff.com/doku.php?id=publications
Also, a very good book : http://www.bentley.com/en-US/Training/Books/Architectural+Geometry.htm
I have uploaded my graduate thesis publication on parametric modeling here: http://www.davismarques.com/share/DavisMarques-FederationModeler.pdf The thesis deals with change management strategies for complex design projects. It draws on systems theory and cognitive models of designer behavior. The outcome was a prototype parametric modeling system, similar in many respects to Grasshopper and GenerativeComponents.
in general the writings of Patrik Schumacher are quite useful for understanding an approach towards advanced digital design methods.

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