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OpenFasta

Rearranges and re-orientates fasta files

OpenFasta rearranges and re-orientates fasta files to begin with a user-provided "opening sequence" and proceed in the same direction (forward/reverse) as that opening sequence. The opening sequence file should contain only the nuleotide sequence where you'd like your rearranged fasta file to begin. The script can be applied to a single file or a directory containing multiple fasta files with any file ending.

##Usage:

NB: Do not use both -f and -d

OpenFasta.sh -o [FILE] -f [FILE] -d [DIRECTORY]
  -o  File containing opening sequence only
  -f  Fasta file to reorientate
  -d  Directory of fasta files to reorientate

Written for use with Ubuntu 16.