stockholm writer initial addition
initial stockholm format writer files
stockholm parser initial commit
getting in line with new parse.sequences setup
test files added
taking care of PEP8/code cleanup
defaultdict usage, cleanup for readability
merge upstream/master
moving code to new StockholmAlignment class
add stockholm to format/sequences/__init__.py
Merge branch 'master' of https://github.com/biocore/scikit-bio into stockholm
moved string creatin into alignment object
remove stockholm from parse.sequences init
pep8 and doctest fixes
more doctest fixes, tests for coverage
Fix index.rst for docs
python3 compatability changes
documentation fixes
more docstring fixes
more documentation added