clean up readme

Author: Benjamin-Lee

README.md

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 # Python Codon Adaptation Index
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-# CAI.py: Python Codon Adaptation Index
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 An implementation of Sharp and Li's 1987 formulation of the codon adaption index.
 
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 ## Usage
 ### Simple Usage
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-The simple
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 The simplest way to calculate the CAI of a sequence is to call `CAI()` with the sequence as the first (required) argument and with the `sequences` argument included. The sequences argument is a list of reference sequences. Determining which sequences to use as the reference set is left to the user.
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 ```python
 
 from CAI import CAI
 
 print CAI("ATGGATTAC...", sequences=["ATGTTTGCTAAA", "ATGCGATACAGC",...])
 
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-```
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 ```
 ### Advanced Usage
 If you have already computed the weights or RSCU values of the reference set, you can supply `CAI()` with one or the other as arguments. They must be formatted as a dictionary and contain values for every codon.
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 ## Contact
 I'm available for contact at [benjamin_lee@college.harvard.edu](mailto:benjamin_lee@college.harvard.edu).
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