User:Jarle Pahr/Hardware

Notes on hardware of interest:

http://www.instructables.com/

http://hackaday.com/

http://opensourceecology.org/wiki-gvcs.php

Tablets

http://www.pengpod.com/

Nexus 7:

http://en.wikipedia.org/wiki/Nexus_7

• 19,8 x 12,0 cm
• 340 g
• 1 GB RAM
• 1,2 Ghz quad-core CPU

Nexus 10:

• http://en.wikipedia.org/wiki/Nexus_10
• 26,4 x 17,8 cm
• 2 GB RAM
• 1,7 Ghz dual-core CPU
• 603 g

iPad 2:

• 24,12 x 18,57 cm

Lab equipment

OpenPCR:

POGO Oligonucleotide synthesizer: http://www.bioinformatics.org/pogo/

DIY scanning Electron microscope: http://benkrasnow.blogspot.nl/2011/03/diy-scanning-electron-microscope.html

DIY Bioprinter: http://www.instructables.com/id/DIY-BioPrinter/?ALLSTEPS

http://myspectral.com/

Tekla labs - research grade DIY instructables: http://guides.teklalabs.org/

Automated fluid handling

http://forums.reprap.org/read.php?194,32936

http://88proof.com/synthetic_biology/blog/archives/407

http://unterbahn.com/2010/02/diy-lego-liquid-handling-robot-for-gene-synthesis/

http://2009.igem.org/Team:Washington-Software

http://openwetware.org/wiki/Mike_Barnkob:Projects/Liquid_handling_robot

https://groups.google.com/forum/?fromgroups=#!topic/diybio/D5-eOnJjw_A

https://groups.google.com/forum/#!topic/diybio/Cp8n7p3kPMc

https://forum.sparkfun.com/viewtopic.php?f=14&t=23561

http://88proof.com/synthetic_biology/blog/archives/461

www.andrewalliance.com

http://forums.reprap.org/read.php?1,11439,11494

https://github.com/delinquentme/LH001#readme

http://hackteria.org/wiki/index.php/DIY_Micro_Dispensing_and_Bio_Printing

Microfluidics

http://hackteria.org/wiki/index.php/DIY_Microfluidics

http://wetpong.net/wetpong/?page_id=115

http://fab.cba.mit.edu/classes/S62.12/people/tsai.liz/index.html

http://fluidicmems.com/2010/04/21/diy-microfluidics/http://fluidicmems.com/2010/04/21/diy-microfluidics/

Electroporation

http://biotech.wku.edu/online_manual/Bio-Rad%20Gene%20Pulser%20II.pdf

The BioRad Gene Pulser II electroporation system requires the Gene Pulser II Core unit and an acessory unit (Pulse Controller II or Capacitance Extander) The BioRad Gene Pulser II core unit (110 V) has been spotted on sale for 400 USD on EBay: http://www.ebay.com/itm/Bio-Rad-BioRad-Gene-Pulser-II-2-Apparatus-340BR-/290868541376?pt=LH_DefaultDomain_0&hash=item43b91db7c0 Shipping (~200 USD) and import tax would bring total cost to ~ 4500 NOK.

http://www.ebay.com/itm/BioRad-GenePulser-Gene-Pulser-II-Apparatus-Electroporation-System-/181067560006?pt=LH_DefaultDomain_0&hash=item2a2877b446

Pulse Controller spotted for ~200 USD:

http://www.ebay.com/itm/BIORAD-PULSE-CONTROLLER-BIO-RAD-1652098-FOR-GENE-PULSER-/280907232003?pt=UK_BOI_Medical_Lab_Equipment_Lab_Equipment_ET&hash=item4167603303

Recent development in low-cost electroporation: http://www.eurekalert.org/pub_releases/2013-02/f-sf-asb020713.php Appears to be only usable for electroporation of adherent cells.

See also http://www.ncbi.nlm.nih.gov/pubmed/1368271

List price for BioRad MicroPulser electroporator is 20 000 NOK: http://www.bio-rad.com/prd/en/NO/adirect/biorad?ts=1&cmd=BRCatgProductDetail&vertical=LSR&catID=83527990-34fb-4b33-b955-ca53b57bf8b9

Processors

http://en.wikipedia.org/wiki/ARM_architecture

• Used in majority of smartphones.

http://en.wikipedia.org/wiki/X86

Electronics

http://en.wikipedia.org/wiki/Bug_Labs

Udoo: http://www.kickstarter.com/projects/435742530/udoo-android-linux-arduino-in-a-tiny-single-board

http://www.pcduino.com/

http://blog.makezine.com/2013/04/15/arduino-uno-vs-beaglebone-vs-raspberry-pi/

Arduino

Single-board microcontroller based on Atmel's ATMEGA8 and ATMEGA168 AVR microcontrollers. Arduino is a fork from the Wiring development platform.

http://en.wikipedia.org/wiki/Arduino

http://arduino.cc/

Introduction: http://www.arduino.cc/en/Guide/Introduction

FAQ: http://arduino.cc/en/Main/FAQ

Foundations: http://arduino.cc/en/Tutorial/Foundations

Language reference: http://arduino.cc/en/Reference/HomePage

Arduino products: http://arduino.cc/en/Main/Products

Distributors: http://arduino.cc/en/Main/Products

Tutorials: http://arduino.cc/en/Tutorial/HomePage

Getting started: http://arduino.cc/en/Guide/HomePage

Software: http://arduino.cc/en/main/software

• Runs on Windows, Macintosh OSX, and Linux operating systems.

http://arduino.cc/en/Reference/HomePage

See also http://sanguino.cc/

http://blog.makezine.com/arduino/

SimDuino, an iPad Arduino simulator: http://arduino.cc/forum/index.php/topic,107629.0.html

Concepts:

• Sketch: The term for an Arduino program. A unit of code that is uploaded and run on an Arduino board. Sketches are saved with the file extension .ino.
• Shields: Printed circuit expansion boards called "shields" can be plugged into the Arduino pin-headers to provide specialized functions such as GPS, ethernet, LCD display etc.

Programming:

http://arduino.cc/en/Guide/Environment

The Arduino programming environment is based on the Processing programming environment (http://www.processing.org/).

The Arduino language is based on C/C++. After processing, Arduino codes is handed of to a C/C++ compiler (avr-g++).

http://blog.makezine.com/2013/04/15/developing-for-arduino-on-android/

Because Arduino uses Atmel's microprocessors, Atmels development environments AVR Studio and Atmel Studio may also be used for software development. Functions/methods:

Applications:

Building Research Equipment with Free, Open-Source Hardware: http://www.sciencemag.org/content/337/6100/1303.summary

http://www.diydrones.com/notes/ArduPilot

http://playground.arduino.cc/Projects/Ideas

http://www.instructables.com/id/Arduino-Projects/

Books:

Programming Arduino: Getting started with Sketches: http://www.amazon.com/Programming-Arduino-Getting-Started-Sketches/dp/0071784225/ref=sr_1_3?ie=UTF8&qid=1366760346&sr=8-3&keywords=Arduino

Arduino Cookbook: http://www.amazon.com/Arduino-Cookbook-Michael-Margolis/dp/1449313876/ref=sr_1_7?ie=UTF8&qid=1366760346&sr=8-7&keywords=Arduino

Practical Arduino: Cool projects for open source hardware: http://www.amazon.com/Practical-Arduino-Projects-Hardware-Technology/dp/1430224770/ref=tag_dpp_lp_edpp_ttl_in

http://www.amazon.com/30-Arduino-Projects-Evil-Genius/dp/007174133X/ref=pd_sim_pc_5

Accessories/Kits:

Sparkfun Inventors kit: http://www.amazon.com/Sparkfun-Inventors-professional-Arduino-retail/dp/B005FMNJ3S/ref=sr_1_14?ie=UTF8&qid=1366760346&sr=8-14&keywords=Arduino

Costs $100, free shipping.

Newsite Uno 3 starter kit: http://www.amazon.com/Starter-Kit-Newsite-Uno-Breadboard/dp/B0051QHPJM/ref=sr_1_2?ie=UTF8&qid=1366760346&sr=8-2&keywords=Arduino

http://www.makershed.com/Getting_Started_with_Arduino_Kit_V3_0_p/msgsa.htm

http://arduino.cc/en/Main/ArduinoStarterKit

http://store.arduino.cc/eu/index.php?main_page=product_info&cPath=2_23&products_id=185

Costs ~ 80€. ( + shipping + import duty)

Raspberry Pi

http://www.raspberrypi.org/

http://en.wikipedia.org/wiki/Raspberry_Pi

http://www.itavisen.no/nyheter/raspberry-pi-er-helt-fantastisk-4976

Official downloads: http://www.raspberrypi.org/downloads

Unofficial wiki: http://elinux.org/RPi_Hub

Quick start guide: http://www.raspberrypi.org/wp-content/uploads/2012/12/quick-start-guide-v1.1.pdf

Official forum - basic setup and usage: http://www.raspberrypi.org/phpBB3/viewforum.php?f=26

Buying guide: http://elinux.org/RPi_Buying_Guide

FAQ: http://www.raspberrypi.org/faqs

Introducing the raspberry pi - getting started: http://www.h2g2.com/approved_entry/A9143796

Introducing the raspberry pi - peripherals you'll need: http://www.h2g2.com/approved_entry/A13413584

Raspberry Pi Stack exchange: http://raspberrypi.stackexchange.com/

The Pi Hut - accessories: http://thepihut.com/

"The true cost of Raspberry Pi - essential accessories": http://www.penguintutor.com/blog/viewblog.php?blog=6354

https://www.modmypi.com/

Gotcha's and new users tips: http://www.keyboardmaven.com/2013/04/raspberry-pi-gotchas-and-newbiebuyer.html

• Boots from SD card (Not included in price). Minimum size 2 GB. Minimum 4GB recommended. Pre-loaded SD cards can be bought. (for example: http://www.amazon.co.uk/For-Raspberry-preloaded-operating-partitioned/dp/B008IU78EK) If not, an SD card reader is needed to prepare the card. High-speed category 4 is recommended. See http://elinux.org/RPi_Easy_SD_Card_Setup and http://elinux.org/RPi_SD_cards
• Programs must be compilable for ARMv6 architecture. (Windows/x86 not supported)
• Video output through HDMI or Composite. No VGA.
• Power through micro USB port. Standard phone charger with micro USB plug can be used (minimum 700mA at 5 volts).
• No Real Time Clock (RTC) on board. Time is updated over internet after each boot.
• Not all peripherals (keyboards, mice, etc.) may work (may draw too much power). See http://elinux.org/RPi_VerifiedPeripherals
• Two models: A and B. B model draws 3.5 W, the A model 2 W.
• B model specifications: 700 Mhz ARM1, 256 MB SDRAM

http://elinux.org/RPi_Hardware_Basic_Setup#Prepared_Operating_System_SD_Card

http://www.theregister.co.uk/2013/03/14/feature_ten_raspberry_pi_projects/

Books:

Gray Girling: Rapsberry Pi Owners workshop manual: http://www.amazon.co.uk/Raspberry-Pi-Manual-practical-revolutionary/dp/0857332953

Mike McGrath: Raspberry Pi in easy steps: http://www.amazon.com/Raspberry-Easy-Steps-Mike-McGrath/dp/1840785810

Review of Raspberry pi books: http://www.theregister.co.uk/2013/04/18/feature_getting_into_the_raspberry_pi_books/

Richardson & Wallace. Getting Started with Raspberry Pi. Published December 2012: http://shop.oreilly.com/product/0636920023371.do

Upton & Halfacree: Raspberry Pi User Guide: http://www.amazon.com/Raspberry-User-Guide-Gareth-Halfacree /dp/111846446X Published September 2012. Somewhat dated already?

Tinkerforge

http://en.wikipedia.org/wiki/Tinkerforge

http://www.tinkerforge.com/en

3D Printing

RepRap:

http://en.wikipedia.org/wiki/RepRap_Project

http://reprap.org/wiki/Main_Page

http://forums.reprap.org/list.php?1

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http://www.solidoodle.com/

http://vort.org/2012/11/20/why-doesnt-your-lab-have-3d-printer-yet/

http://forums.somethingawful.com/showthread.php?threadid=3365193

http://whatabout.no/

http://www.reprapcentral.com/vmchk.html

www.makerbot.com

http://www.reprap.org/wiki/Main_Page

www.3ders.org/

http://www.3ders.org/articles/20121123-meet-metalbot-new-all-metal-reprap-compatible-3d-printer.html

http://reprap.org/wiki/RepRap_Buyers%27_Guide

http://www.thingiverse.com/

http://vort.org/2011/09/19/how-sequence-10000-metagenomes-3d-printer/

Software:

http://replicat.org/

https://github.com/SolidCode/SolidPython#readme

Reviews

http://reviews.cnet.com/3d-printers/makerbot-replicator-3d-printer/4505-33809_7-35266602.html

Vendors

http://www.reprapdiscount.com/

http://adafruit.com/