idfetch - retrieve biological data from the NCBI ID1 server

       The National Center for Biotechnology Information.

NCBI                                               2016-09-01                                         IDFETCH(1)

idfetch is a client for NCBI's ID1 server, which  contains  a  large  database  of  annotated  biological
       sequences.

       idfetch - retrieve biological data from the NCBI ID1 server

       A summary of options is included below.

       -      Print usage message

       -Fstr Add  the  specified  feature types (comma-delimited); allowed values are CDD, SNP, SNP_graph, MGC,
              HPRD, STS, tRNA, and microRNA.

       -Gfilename
              File with list of GIs, (versioned) accessions, FASTA SeqIDs to dump

       -Qfilename
              Generate GI list by Entrez query in filename; requires -dn or -dp.

       -cN   Max complexity:
              0      get the whole blob (default)
              1      get the bioseq of interest
              2      get the minimal bioseq-set containing the bioseq of interest
              3      get the minimal nuc-prot containing the bioseq of interest
              4      get the minimal pub-set containing the bioseq of interest

       -dstr Database to use (with -q, can be either n for nucleotides or p for proteins).

       -eN   Entity number (retrieval number) to dump

       -fstr Flattened SeqId.  Possible formats:
              type([name][,[accession][,[release][,version]]]) as '5(HUMHBB)'
              type=accessiontype:number
              (type is a number indicating the ASN.1 Seq-id subtype.)

       -gN   GI id for single Entity to dump

       -iN   Type of lookup:
              0      get Seq-entry (default)
              1      get GI state (output to stderr)
              2      get SeqIds
              3      get GI history (sequence change only)
              4      get revision history (any change to ASN.1)

       -lfilename
              Log file

       -n     Output only the list of GIs (with -q and -Q).

       -ofilename
              Filename for output (default = stdout)

       -qstr Generate gi list by Entrez query.  Requires -dn or -dp.

       -sstr FASTA style SeqId ENCLOSED IN QUOTES.  Formats:
              lcl|intorstrbbs|intbbm|intgb|acc|locemb|acc|locpir|acc|namesp|acc|namepat|country|patent|seqgi|intdbj|acc|locprf|acc|namepdb|entry|chain-tN   Output type:
              1      text ASN.1 (default)
              2      binary ASN.1
              3      GenBank (Seq-entry only)
              4      GenPept (Seq-entry only)
              5      FASTA (table for history)
              6      quality scores (Seq-entry only)
              7      Entrez DocSums
              8      FASTA reverse complement

idfetch   [-]  [-Fstr]  [-Gfilename]  [-Qfilename]  [-cN]  [-dstr]  [-eN]  [-fstr]  [-gN]  [-iN]
       [-lfilename] [-n] [-ofilename] [-qstr] [-sstr] [-tN]