How to generate a fasta file from a python dictionary or lists?

Question

[grayapply2009]

I have two lists:

list_seq = [sequence1, sequence2, sequence3, sequence4]

list_name = [name1, name2, name3, name4]

I can zip them to a dictionary:

dict_s_n = dict(zip(list_seq & list_name))

How do I generate a fasta file from these two lists or the dictionary?

[Manu Prestat]

This is in python, isn't it? I'm adding the tag and editing the title to make it more clear.

Answer 1

[Ming Tommy Tang]

You just need to write the name and sequence to a fasta format

>name1
sequence1
>name2
sequence2
..
..
..

ofile = open("my_fasta.txt", "w")

for i in range(len(list_seq)):
    ofile.write(">" + list_name[i] + "\n" +list_seq[i] + "\n")

#do not forget to close it
ofile.close()

[Thibault D.]

Hi ! I would just add ofile.close() to your solution, tangming2005, as you did not used the "with" statement to open "my_fasta.txt".

[Ming Tommy Tang]

You are right! Do not forget to close ..

[grayapply2009]

Great! I didn't think it was that easy. Many thanks, tangming2005!

[Ming Tommy Tang]

Yes, just read some more stuff here http://www.greenteapress.com/thinkpython/

[grayapply2009]

Nice website!

[manaswwm]

nice and simple. I wanted to do it with biopython, but this one is much easier.