Emase

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* ``AlignmentPropertyMatrix`` can represent an equivalence class
* Fixed a bug in length normalization
* Swapped Model ID's between 1 and 2

- Model 1: Gene->Allele->Isoform (*)
- Model 2: Gene->Isoform->Allele (*)
- Model 3: Gene->Isoform*Allele
- Model 4: Gene*Isoform*Allele (RSEM model)

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* Fixed length normalization: Depth = Count / (Transcript_Length - Read_Length + 1)

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* Fixed a bug in ``prepare-emase``

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* Fixed a bug in Model 2 of handling multireads
* ``run-emase`` checks absolute sum of error (in TPM) for termination

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* Added three more models of handling multireads

- Model 1: Gene->Isoform->Allele
- Model 2: Gene->Allele->Isoform
- Model 3: Gene->Isoform*Allele
- Model 4: Gene*Isoform*Allele (RSEM model)

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* First release on PyPI
* Only implements RSEM model for handling Multiply-mapping reads (or multireads)