User:Jarle Pahr/Hardware
Notes on hardware of interest:
http://opensourceecology.org/wiki-gvcs.php
Tablets
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
Pris: ~ 2000 NOK (uten 3G)
Nexus 10:
- http://en.wikipedia.org/wiki/Nexus_10
- http://www.google.com/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
http://www.reddit.com/r/Nexus10/comments/16c4kd/nexus_10_owners_would_you_buy_your_nexus_again/
http://www.diskusjon.no/index.php?showtopic=1467381&st=60
http://www.amazon.com/Google-Nexus-10-Wi-Fi-only/dp/B00ACVHKSC
Pris: ~ 3600 NOK
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
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
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.
Pulse Controller spotted for ~200 USD:
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://blog.makezine.com/2013/04/15/arduino-uno-vs-beaglebone-vs-raspberry-pi
http://freak.no/forum/forumdisplay.php?s=df6e715254c0b9035b3108b2ec531dbc&f=152
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
10 ways to destroy an arduino: http://www.ruggedcircuits.com/html/ancp01.html
Official resources
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
Power supply: http://playground.arduino.cc/Learning/WhatAdapter
- 9-12 V DC
- Minimum 250 mA, recommended 500mA - 1A.
- 2.1 mm power plug, centre positive
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
Unofficial resources
MAKE Magazine - Arduino section: http://blog.makezine.com/category/arduino/
MAKE Magazine Arduino blog: http://blog.makezine.com/arduino/
http://www.arduinonorway.org/forum/
Clones and derivate products:
SimDuino, an iPad Arduino simulator: http://arduino.cc/forum/index.php/topic,107629.0.html
Boards
Official Arduino boards:
Arduino Uno:
- Microcontroller board based on ATmega328.
- Can be powered by USB or external power supply.
- 14 digital input/output pins, 6 analog inputs. 16 MHz ceramic resonator.
Arduino Mini: http://arduino.cc/en/Main/ArduinoBoardMini
Arduino Mega 2560:
- 54 digital input/output pins, 16 analog inputs.
- Compatible with most shields designed for the Arduino Duemilanove or Diecimila.
http://arduino.cc/en/Main/ArduinoBoardMega2560
http://www.liquidware.com/shop/show/AMEGA2560/Arduino+Mega+2560
http://www.makershed.com/Arduino_Mega_p/mksp5.htm
Unofficial boards:
Ruggeduino: http://www.ruggedcircuits.com/html/ruggeduino.html
Expansion shields
http://arduino.cc/en/Main/ArduinoShields
http://www.adafruit.com/blog/2010/11/01/arduino-shields-an-adafruit-electronics-gift-guide/
http://www.makershed.com/SearchResults.asp?Search=shield
http://www.trossenrobotics.com/c/arduino-shields.aspx
http://www.liquidware.com/category/Arduino
http://www.mindsensors.com/index.php?module=pagemaster&PAGE_user_op=view_page&PAGE_id=144
Screens:
LOL shield:
http://www.makershed.com/LoL_shield_for_Arduino_p/mkjr3.htm
Digit shield: http://www.makershed.com/Digit_Shield_Green_p/mkntd3.htm
Audio:
http://www.makershed.com/Voice_Shield_kit_for_Arduino_p/mkskl3.htm
http://store.open-electronics.org/Arduino/Shield/AUDIO_SHIELD
Networking & communication:
http://arduino.cc/en/Main/ArduinoEthernetShield
http://arduino.cc/en/Main/ArduinoWirelessShield
http://arduino.cc/en/Main/ArduinoBoardBluetooth
http://arduino.cc/en/Main/ArduinoGSMShield
http://www.open-electronics.org/arduino-gsm-shield/
Motors:
http://arduino.cc/en/Main/ArduinoMotorShieldR3
http://www.ruggedcircuits.com/html/rugged_motor_driver.html
http://www.open-electronics.org/arduino-motor-shield/
Input:
Buttonshield: http://www.liquidware.com/shop/show/BUT/ButtonShield
Sensors:
GPS shield: http://www.ladyada.net/make/gpsshield/
GSM/GPRS and GPS shield: http://store.open-electronics.org/?_route_=/Arduino/Shield/GSM_GPRS_GPS_SHIELD
Weather shield: http://www.zipfelmaus.com/blog/arduino-weather-shield-schematics-layout-code-everything-you-need/
Weather shield: http://www.ethermania.com/shop/index.php?main_page=product_info&cPath=91_104&products_id=612
pHduino: http://code.google.com/p/phduino/
Power:
http://www.liquidware.com/shop/show/BPM/Mega+Backpack
Lithium backpack: http://www.liquidware.com/shop/show/MBP/Lithium+Backpack
Misc:
http://www.makershed.com/DrinkShield_for_Arduino_p/mkgx01.htm
http://www.ruggedcircuits.com/html/gadget_shield.html
MicroSD shield: http://www.sensor-networks.org/index.php?page=0827727742
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/
ArduPilot Mega - Arduino-based autopilot: http://code.google.com/p/ardupilot-mega/wiki/APM2board
GPS tracking: http://www.jeremyblum.com/2012/07/16/tutorial-15-for-arduino-gps-tracking/
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
http://www.robonor.no/mage/default/arduino/123-robotics-experiments-for-the-evil-genius.html
Accessories/Kits
http://no.rs-online.com/web/p/processor-microcontroller-development-kits/7617355/?
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
Getting Started with Arduino Kit v3.0: http://www.makershed.com/Getting_Started_with_Arduino_Kit_V3_0_p/msgsa.htm
Costs $65
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)
Adafruit Budget Pack for Arduino (Arduino Uno R3) - Uno w/328: http://www.adafruit.com/products/193
Costs $50
Adafruit Starter Pack for Arduino (Includes Arduino Uno R3) - 1.0: http://www.adafruit.com/products/68
Costs $65
http://www.robonor.no/mage/default/arduino/arduino-inventors-kit-koffert.html
Sparkfun Inventors Kit (SIK) solgt av Robonor, for NOK 889,-
Raspberry Pi
http://en.wikipedia.org/wiki/Raspberry_Pi
- 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
Official resources:
Official downloads: http://www.raspberrypi.org/downloads
Official forum - basic setup and usage: http://www.raspberrypi.org/phpBB3/viewforum.php?f=26
Quick start guide: http://www.raspberrypi.org/wp-content/uploads/2012/12/quick-start-guide-v1.1.pdf
FAQ: http://www.raspberrypi.org/faqs
Unofficial resources:
Unofficial wiki: http://elinux.org/RPi_Hub
Buying guide: http://elinux.org/RPi_Buying_Guide
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/
http://blog.makezine.com/category/electronics/raspberry-pi/
"The true cost of Raspberry Pi - essential accessories": http://www.penguintutor.com/blog/viewblog.php?blog=6354
Gotcha's and new users tips: http://www.keyboardmaven.com/2013/04/raspberry-pi-gotchas-and-newbiebuyer.html
http://elinux.org/RPi_Hardware_Basic_Setup#Prepared_Operating_System_SD_Card
Applications:
http://www.digi.no/914772/denne-kontrolleres-med-rasperry-pi
http://www.theregister.co.uk/2013/03/14/feature_ten_raspberry_pi_projects/
http://blog.makezine.com/2013/04/14/47-raspberry-pi-projects-to-inspire-your-next-build/
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?
News and reviews:
http://www.itavisen.no/nyheter/raspberry-pi-er-helt-fantastisk-4976
Tinkerforge
http://en.wikipedia.org/wiki/Tinkerforge
3D Printing
Filaments
ABS plastic
PLA: http://reprap.org/wiki/PLA
See also: http://reprap.org/wiki/PrintingMaterials
Food safe printing:
http://www.3dprintingera.com/food-safe-3d-printing/
http://www.dezeen.com/2013/03/27/food-is-the-next-frontier-of-3d-printing-janne-kytannen/
http://reprage.com/post/36869678168/is-3d-printed-pla-food-safe
Links
http://blog.makezine.com/category/workshop/3d-printing-workshop/
http://www.3dprintingera.com/what-are-3d-printers-bad-at/
http://vort.org/2012/11/20/why-doesnt-your-lab-have-3d-printer-yet/
http://forums.somethingawful.com/showthread.php?threadid=3365193
http://www.reprapcentral.com/vmchk.html
http://cubify.com/cube/index.aspx?hp_bn_cube
www.3ders.org/
http://www.3ders.org/articles/20121123-meet-metalbot-new-all-metal-reprap-compatible-3d-printer.html
http://www.lulzbot.com/catalog
http://vort.org/2011/09/19/how-sequence-10000-metagenomes-3d-printer/
Solidoodle
Solidoodle 3D printer 3d generation: http://store.solidoodle.com/index.php?route=product/product&product_id=79
- 799 USD
Solidoodle 3D printer 2nd generation: http://store.solidoodle.com/index.php?route=product/product&product_id=56
- 499 USD
Makerbot
www.makerbot.com
Makerbot Replicator 2: http://store.makerbot.com/replicator2.html
- 2200 $ USD
RepRap
http://en.wikipedia.org/wiki/RepRap_Project
http://reprap.org/wiki/Main_Page
http://forums.reprap.org/list.php?1
http://www.reprap.org/wiki/Main_Page
http://reprap.org/wiki/RepRap_Buyers%27_Guide
http://www.robonor.no/mage/default/
http://www.makergear.com/products/3d-printers
Other printers
http://pinterest.com/finklean/diy-3d-printers/
http://makibox.com/details/product/A6-LT
- 200 USD. Uses PLA filament. 6-10 weeks lead time.
Software
https://github.com/SolidCode/SolidPython#readme
Reviews and discussion
http://reviews.cnet.com/3d-printers/makerbot-replicator-3d-printer/4505-33809_7-35266602.html
http://freak.no/forum/showthread.php?t=219137
http://www.treehugger.com/gadgets/28-affordable-3d-printers-you-can-buy-now.html
http://blog.makezine.com/2013/03/25/will-3d-printers-save-the-world/
Vendors
http://www.reprapdiscount.com/
http://www.makershed.com/default.asp
http://www.raspberry-pi-buy.com/
3D scanners
MakerScanner
http://www.makerscanner.com/docs/1-makerscanner.html
http://www.thingiverse.com/thing:3946
http://abarry.org/makerscanner/2-makerscanner-building.html
DAVID 3D Scanner
http://www.david-laserscanner.com/
http://shop.david-vision-systems.de/
FabScan
FabScan: http://hci.rwth-aachen.de/fabscan
FabScan hardware: https://hci.rwth-aachen.de/fabscan_hardware
https://groups.google.com/forum/?fromgroups=#!forum/fabscan
https://github.com/francisengelmann/FabScan100
http://shop.mariolukas.de/de/Fabscan-Kit
FabScan 100 Linux Version: https://groups.google.com/forum/?fromgroups=#!topic/fabscan/oIMZYx_utjo
FabScan Arduino shield: http://hci.rwth-aachen.de/fabscan_shield
http://www.watterott.com/de/Arduino-FabScan-Shield
Ideas
Bacteria transformer:
Input materials: Eppendorf tubes (containing supercompetent cells or DNA), water, ice, sterile liquid growth medium, pipette tips. Should perform: Add DNA, heat shock, addition of medium, incubation. Should produce: Transformed cells ready for plating out.
Technical requirements: Must be able to open and close eppendorf tubes. Must be able to regulate temperature for heat shock and incubation chambers/water baths. Must be able to transfer all tues simultaneously.
Challenges: Opening/closing tubes. Tubes must be kept firmly in place when opening/closing lids. Either lid closing/opening operation must be very reliable, or the machine must be able to detect a failure to correctly open/close all lids (probably hard).
Idea: Place all
Plate spreader:
Input materials: Plastic petri dishes, sterile glass beads, eppendorf tubes containing cells. Should perform: Transfer cells to plates, add glass