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Posts by kwathen-dunn
... Thanks very much for this! I have made a few modifications to Eric's script so it can be easily run on different files. I have it saved as 'seq_extractor.py' on my computer: # Execute by: python seq_extractor.py readsList fastafile outputfile from Bio import SeqIO import sys ...
... The toupper() R function has worked well for me. I was using assembly software that ouputted in lowercase and needed to convert this to uppercase for use in downstream quality-check software. The simple R script I used was: fasta = readLines("/path-to-fasta-file/filename.fa") new = toupper( ...
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