关于给定DNA序列,如何找到合理的切割位点使得其退火温度保持相对一致

多说无益,直接上代码(其实就是懒的说)

import random
import numpy as np

S = ['A','G','C','T']


def createStr(n):
    str = []
    for i in range(30):
        str.append(S[random.randint(0,3)])
    return str

def calScore(str):
    score =[]
    for i in range(len(str)):
        if str[i] in ('G','C'):
            score.append(4)
        else:
            score.append(2)
    return score

def divide(score,eTm,low,high):
    div_point=[]
    div_score=[]
    i=j=0
    total_len = len(score)
    piece_s = 0
    while j < total_len:
        piece_s += score[j]
        if j-i+1  < low:   #长度不足下限
            continue
        else:
            if j-i+1 == high:  #长度达到上限
                i = j+1
                j = i
                div_point.append(j)  #添加分割点
                div_score.append(piece_s)
                pieces_s = 0
            else:      #长度在范围内
                if piece_s >= eTm:  #温度达到或超过期望值
                      i = j+1
                      j = i
                      div_point.append(j)  #添加分割点
                      div_score.append(piece_s)
                      piece_s = 0
        j += 1
    
    return div_point,div_score
                
                
def std(div_score):
    a = np.array(div_score)
    mean = np.mean(a)
    return np.sum((a-mean)**2)/len(a)
           
            

str = createStr(10)
score = calScore(str)
posted @ 2020-12-07 15:15  裏表異体  阅读(151)  评论(0编辑  收藏  举报