changed things in prep of adding more BWA alignment methods as well as changed documentation about `align_to_genome` being appropriate for long-reads only.
basic bwa aln implementation
now align_to_genome supports both short and long reads
added better documentation
added base item for ExcisionTools package
needed a simple tool to convert everything into a string. Going to be useful everywhere.
Now has a tool for scoring gRNA hits
Stupid typo would be silly
added a class to deal with the gRNA complexities
refactored into a SeqFeature object. This will make things MUCH easier later!
Now the GuideRNA can be flipped and shifted when its attached to a SeqRecord object.
Now has the ability to search sequences for gRNAs
added a utility function to annotate SeqRecord objects with gRNAs
better docs
massive internal refactoring to deal with the issue of overlapping GG's which using re.findall would skip! Now finds everything from the example on http://crispr.mit.edu/
refactored to have the index name be defined.
Merge branch 'feature/grna_search' into develop