fastaq-add_indels

FASTAQ-ADD_INDELS(1)             User Commands            FASTAQ-ADD_INDELS(1)



NAME
       fastaq_add_indels - Deletes or inserts bases at given position(s)

DESCRIPTION
       usage: fastaq_add_indels [options] <infile> <outfile>

       Deletes or inserts bases at given position(s)

   positional arguments:
       infile Name of input file

       outfile
              Name of output file

   optional arguments:
       -h, --help
              show this help message and exit

       -d Name:start:bases, --delete Name:start:bases
              Delete the given bases from the given sequence. Format same as
              samtools view: name:start-end. This option can be used multiple
              times (once for each region to delete). Overlapping coords will
              be merged before deleting

       --delete_range P,start,step
              Deletes bases starting at position P in each sequence of the
              input file. Deletes start + (n-1)*step bases from sequence n.

       -i Name:start:bases, --insert Name:start:bases
              Insert a random string of bases at the given position.  Format
              is name:position:number_to_add. Bases are added after the
              position. This option can be used multiple times

       --insert_range P,start,step
              Inserts random bases starting after position P in each sequence
              of the input file. Inserts start + (n-1)*step bases into
              sequence n.



fastaq 3.17.0                      July 2018              FASTAQ-ADD_INDELS(1)