I downloaded the dat files from Uniprot taxonomic division and I need to use them in FASTA format. Is it complicated to convert or parse dat files into FASTA? Does anyone can know how to do it? Thanks. T_T
It is not really clear what kind of data you have downloaded.
See these posts in any case:
How To Download Swiss-Prot .Dat File From Uniprot
Parsing uniprot .dat files
See this site as well:
I recommend that you have a look at these threads and the answers I gave there:
How to makeblastdb Uniprot's Taxonomic Divisions?
A: How to makeblastdb Uniprot's Taxonomic Divisions?
Converting Uniprot File to a Fasta File in Perl
A: Converting Uniprot File to a Fasta File in Perl
install biopython then
make the following python script dat2fasta.py file and run the script using python dat2fasta.py
from Bio import SeqIO
records = SeqIO.parse("uniprot_trembl_mammals.dat", "swiss")
count = SeqIO.write(records, "uniprot_trembl_mammals.fasta", "fasta")
print("Converted %i records" % count)
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