diallobakary4

# https://stackoverflow.com/questions/21542753/dir-without-built-in-methods
def vdir(obj):
    return [x for x in dir(obj) if not x.startswith('__')]
#Test
#test2
print(1)

diallobakary4

print(11) 
 

diallobakary4

diallobakary4

<div id="viewport" style="width:100%; height:100%;"></div>

diallobakary4

import os
import sys
from shutil import copyfile
"""
Fix the atom types names in a acpype generated itp file for Gromacs.
Input: *_GMX.itp *_NEW.pdb  eg: NAD_H_GMX.itp NAD_H_NEW.pdb
to run: python itpsort2.py NAD_H_GMX.itp NAD_H_NEW.pdb
"""
file  =  sys.argv[1] #"NAD_H_GMX.itp"
pdb = sys.argv[2] # "NAD_H_NEW.pdb"

diallobakary4

#!/usr/bin/env python
# -*- coding: utf-8 -*-
#NCBI data extraction using Eutilities and Python
# More details "https://www.ncbi.nlm.nih.gov/books/NBK25498/

__author__ = "Bakary N'tji Diallo"
__email__ = "[email protected]"

import requests

diallobakary4

# -*- coding: utf-8 -*-

# Protein Translation Problem: Translate an RNA string into an amino acid string.
#      Input: An RNA string Pattern and the array GeneticCode.
#      Output: The translation of Pattern into an amino acid string Peptide.
from collections import defaultdict
import itertools

genetic_code = {'ACC': 'T', 'GCA': 'A', 'AAG': 'K', 'AAA': 'K', 'GUU': 'V', 'AAC': 'N', 'AGG': 'R',
                'UGG': 'W', 'GUC': 'V', 'AGC': 'S', 'ACA': 'T', 'AGA': 'R', 'AAU': 'N', 'ACU': 'T',

diallobakary4

# Protein Translation Problem: Translate an RNA string into an amino acid string.
#      Input: An RNA string Pattern and the array GeneticCode.
#      Output: The translation of Pattern into an amino acid string Peptide.
from collections import defaultdict
import itertools

Genetic_code = {'ACC': 'T', 'GCA': 'A', 'AAG': 'K', 'AAA': 'K', 'GUU': 'V', 'AAC': 'N', 'AGG': 'R',
                'UGG': 'W', 'GUC': 'V', 'AGC': 'S', 'ACA': 'T', 'AGA': 'R', 'AAU': 'N', 'ACU': 'T',
                'GUG': 'V', 'CAC': 'H', 'ACG': 'T', 'AGU': 'S', 'CCA': 'P', 'CAA': 'Q', 'CCC': 'P',
                'UGU': 'C', 'GGU': 'G', 'UCU': 'S', 'GCG': 'A', 'CGA': 'R', 'CAG': 'Q', 'CGC': 'R',

diallobakary4

# -*- coding: utf-8 -*-

# CODE CHALLENGE: Solve the String Composition Problem.
#      Input: An integer k and a string Text.
#      Output: Compositionk(Text) (the k-mers can be provided in any order).
def StringKmerCompo(sequence, kmerlenght):
    compo,i =[],0
    while i < (len(sequence)-kmerlenght+1):
        compo.append(sequence[i:i+kmerlenght])
        i+=1

diallobakary4

# scrip that print the number of time a word appear in a text

#import the text file and read it
test = open("test list of word r.txt", 'r');
text = test.read();

#build a list of the words in the text
listOfWord = text.split()

# dictionnay that will contain the words