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Never had a reference for any microcontroller myself other than just internet lookups. Do you have any experience with any other microcontroller as a starter? It's kinda tough to get into ARM right off the bat and Cortex-M3/M0 is only one step up from a more advanced 8 bit so if you are starting off all together, I think it would be best to go with an 8bit first.
I would imagine most references that you can buy would be more centered around the core and instruction set as every manufacturer has its own peripheral set.
For a university class, we bought the STM32F100RB discovery board and are using the free Keil uVision4 as an IDE. For resources we are using "The Definitive Guide to the ARM Cortex-M3" by Joseph Yiu (can probably be found online illegally) and referring to the STM32F100 Reference Manual.
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