I have these sequences:
0,<|endoftext|>ERRDLLRFKH:GAGCGCCGCGACCTGTTACGATTTAAACAC<|endoftext|>
1,<|endoftext|>RRDLLRFKHG:CGCCGCGACCTGTTACGATTTAAACACGGC<|endoftext|>
2,<|endoftext|>RDLLRFKHGD:CGCGACCTGTTACGATTTAAACACGGCGAC<|endoftext|>
3,<|endoftext|>DLLRFKHGDS:GACCTGTTACGATTTAAACACGGCGACAGT<|endoftext|>
And I'd like to get only the aminoacid sequences, like this:
ERRDLLRFKH:
RRDLLRFKHG:
RDLLRFKHGD:
DLLRFKHGDS:
I have wrote this script so far:
with open("example_val.txt") as f:
for line in f:
if line.startswith(""):
line = line[:-1]
print(line.split(":", 1))
Nevertheless, I got only the original sequences. Please give me some advice.
Regex solution:
import re
with open("example_val.txt") as f:
re.findall("(?<=>)[a-zA-Z]*:", f.read())
Regex Explanation:
(?<=>) : is a positive lookbehind which finds the > character before our match[a-zA-Z]*: : matches zero or more of characters present in a-z and A-Z with the colon at the endTest in Regex101 : regex101.com/r/qVGCYF/1
Collected from the Internet
Please contact [email protected] to delete if infringement.
Comments