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use Ham's Naming Convention for Sequence Starts #15

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mgaldzic opened this issue Mar 16, 2011 · 0 comments

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mgaldzic commented Mar 16, 2011

The issue is about 0 based and 1 based interval schemes.

conventional annotation of nucleaotide sequences uses a 1 based, closed interval scheme
but popular programming languages today use a 0 based, left-closed, right-open interval scheme
Solution: distinguish the 0 based and 1 based interval scheme by using a different variable
name for 1 based starts.

Example:
sequence = "aattccgga"
gb_start = 2
start = gb_start - 1 # this is optional, of course.
end = 5

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