Alphabetizing fasta sequence
Hi everyone,
Can someone suggest a method to sort a fasta file by alphabetical order of the sequence (not the defline)?
Any advice will be appreciated.
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Ram
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stacy734 •
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stacy734 •
3 answers
Using the BBMap package:
shuffle.sh in=file.fasta out=sorted.fasta sequence
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Brian Bushnell
linearize and sort...
awk '/^>/ {printf("%s%s\t",(N>0?"\n":""),$0);N++;next;} {printf("%s",$0);} END {printf("\n");}' roxan.fasta |LC_ALL=C sort -t $'\t' -k2,2 | tr "\t" "\n"
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Pierre Lindenbaum
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Do you have a multi-line or single line fasta?
Thank you all!
Stacy
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