at_coords

Extract the sequence at the specified 1-based co-ordinates in the file

usage: at_coords [-h] [-n N] [-r] [-xr] input_file start end

Positional Arguments

input_file

File containing the reference sequence (FASTA)

start

Start coord (1-based)

end

End coord (1-based)

Named Arguments

-n

Label of sequence in file (must specify if there is more than one sequence in the file)

-r

Reverse-complement the result

Default: False

-xr

Extract the result from the reverse-complement of the sequence (coords refer to the reverse complement sequence)

Default: False