allpy: d9a3e99ae19b allpy/dna.py

allpy

view allpy/dna.py @ 666:d9a3e99ae19b

blocks3d/www: mark conservative columns inside blocks Previously letters were marked if column is conservative over all sequences of alignment. Currently it was changed to conservatism over block including this letter. Additional attribute storing conservatism of columns inside block was added to block. This caused all colors of blocks to be changed.

author	boris <bnagaev@gmail.com>
date	Fri, 01 Jul 2011 03:21:08 +0400
parents	5639138f619a
children	5f9e9c4e9ed6 e461a5529338

line source

1 import base

2 import data.codes

4 import dna

6 class Monomer(base.Monomer):

7 """DNA monomers: nucleotides."""

8 type = 'dna'

9 types = dna

10 by_code1 = {}

11 by_code3 = {}

12 by_name = {}

13 Monomer._initialize(data.codes.dna)

15 class Sequence(base.Sequence):

16 types = dna

18 class Alignment(base.Alignment):

19 types = dna

21 class Block(Alignment, base.Block):

22 pass

24 # vim: set ts=4 sts=4 sw=4 et: