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Added script to extract DNA sequences (as well as 5' or 3' regions if specified) from a FASTA file using a BLAST output file #79
Added a personal script to extract a DNA sequence from a FASTA file using a BLAST output file.
This script is especially useful when trying to extract sequences with variance (hence the BLAST search beforehand) from FASTA files.
The script also has options to extract a specified 3' or 5' sequence from the FASTA file, as well as an e-value cut off. The final output is the extracted sequence in FASTA format.
Is this useful/generic enough to be included in the scripts directory? The script is well tested and takes command-line arguments.
Can you move this into the SearchIO-specific folder (or a related one)? There is a possibility we will split out some related code into separate repos, and it would make sense to migrate scripts along with them (and these would be easier to find if they are present in the appropriate script directory). Thanks!