ncbi_search - visually comparing bacterial, plasmid, chloroplast, or mitochondrial sequences

       This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage
       of the program.

ncbi_search 20170919                               August 2018                                    NCBI_SEARCH(1)

USAGE:
              ncbi_search -q STRING -o FILE -d STRING -r STRING [Options]

   DESCRIPTION:
              Uses NCBI's eSearch to download collections of sequences.

   REQUIREDARGUMENTS:-q, --query [STRING]

              Raw query text.

       -o, --output [FILE]

              Output  file  to  create.  If  the  split  option  is given, this should be a directory, where the
              returned records will be written. If the directory does not exist it will be created.

       -d, --database [STRING]

              Name of the NCBI database to search, such as 'nucleotide', 'protein', or 'gene'.

       -r, --return_type [STRING]

              The type of information requested. For sequences 'fasta' is often used.  The accepted formats vary
              depending on the database being queried.

       -s, --split

              Return each record as a separate file where the file name will will be the accesssion  id  of  the
              record. This option only works if the return_type is 'gb' or 'gbwithparts'.

       -m, --max_records [INTEGER]

              The maximum number of records to return (default is to return all matches satisfying the query).

       -v, --verbose

              Provide progress messages.

       -h, --help

              Show this message.

   EXAMPLE:
              ncbi_search -q 'dysphagia AND homo sapiens[ORGN]' \

       -o results.txt -d pubmed -r uilist -m 100

       ncbi_search - visually comparing bacterial, plasmid, chloroplast, or mitochondrial sequences