Python parse_as_Fasta Exemples

Exemple #1

 def files(self, labels, repertoire):
     '''
     Provide a list of list of sequences
     '''
     sequences = []
     for filenames in repertoire:
         current_sequences = []
         for filename in filenames:
             current_sequences += list(fasta.parse_as_Fasta(open(filename)))
         sequences.append(current_sequences)
     return self(labels, sequences)

Exemple #2

 def files(self, labels, repertoire):
     '''
     Provide a list of list of sequences
     '''
     sequences = []
     for filenames in repertoire:
         current_sequences = []
         for filename in filenames:
             current_sequences += list(fasta.parse_as_Fasta(open(filename)))
         sequences.append(current_sequences)
     return self(labels, sequences)

Exemple #3

'''
python revcomp-fasta.py < in.fa > out.fa
'''

import fasta
import sys

for f in fasta.parse_as_Fasta(sys.stdin):
    f.revcomp()
    sys.stdout.write(str(f))