NAME

       asn2fsa - convert biological sequence data from ASN.1 to FASTA

SYNOPSIS

       asn2fsa  [-]  [-A acc]  [-D]  [-E]  [-H]  [-L filename] [-T] [-a type] [-b] [-c] [-d path]
       [-e N] [-f path] [-g] [-h filename] [-i filename] [-k] [-l] [-m]  [-o filename]  [-p path]
       [-q filename] [-r] [-s] [-u] [-v filename] [-x str] [-y] [-z]

DESCRIPTION

       asn2fsa converts biological sequence data from ASN.1 to FASTA.

OPTIONS

       A summary of options is included below.

       -      Print usage message

       -A acc Accession to fetch

       -D     Use Dash for Gap

       -E     Extended Seq-ids

       -H     HTML spans

       -L filename
              Log file

       -T     Use Threads

       -a type
              Input ASN.1 type:
              a      Automatic (default)
              z      Any
              e      Seq-entry
              b      Bioseq
              s      Bioseq-set
              m      Seq-submit
              t      batch processing (suitable for official releases; autodetects specific type)

       -b     Bioseq-set is Binary

       -c     Bioseq-set is Compressed

       -d path
              Path to ReadDB Database

       -e N   Line length (70 by default; may range from 10 to 120)

       -f path
              Path to indexed FASTA data

       -g     Expand delta gaps into Ns

       -h filename
              Far component cache output file name

       -i filename
              Single input file (standard input by default)

       -k     Local fetching

       -l     Lock components in advance

       -m     Master style for near segmented sequences

       -o filename
              Nucleotide Output file name

       -p path
              Path to ASN.1 Files

       -q filename
              Quality score output file name

       -r     Remote fetching from NCBI

       -s     Far genomic contig for quality scores

       -u     Recurse

       -v filename
              Protein output file name

       -x str File selection substring (.ent by default) [String]

       -y     Debugging

       -z     Print quality score gap as -1

AUTHOR

       The National Center for Biotechnology Information.

SEE ALSO

       asn2all(1), asn2asn(1), asn2ff(1), asn2gb(1), asn2xml(1), asndhuff(1).