hiyama341 / teemi Goto Github PK

nicking enzyme always returns a Dseq, but it would be better I think if it could return a Dseqrecord keeping its original features. It could also work for Dseq as inputs.

You could check whether the argument passed is child of Dseqrecord or Dseq and do differently for each. Alternatively, you could include them as methods of the classes as I mention in #18.

Similar to #19 and mentioned in #18. It could be nice to have the function support Dseq, or make two class methods in Dseq and Dseqrecord.

Hello! When installing the package from Pypi, it does not install any necessary dependency. The user has to separately install pandas, Biopython, etc (which may lead to them using incompatible versions). For now I am using requirements.txt, but it would be good to include them in the next pypi release.

Hi @hiyama341,

I think some of the functions in the cloning module, such as USER_enzyme and nicking_enzyme could be included into pydna as methods of Dseq and Dseqrecord. Only if you think that's a good idea, of course.

There is some functionality for cas9 in pydna, but not sure it does exactly the same as what you have there.

cc @BjornFJohansson