Find EDAM ontology terms by has_input relation
Version: EMBOSS:6.4.0.0

   Standard (Mandatory) qualifiers:
  [-identifier]        string     Identifier(s) to search for in ontology (Any
                                  string)
  [-outfile]           outobo     [*.edamhasinput] Output ontology term file
                                  name

   Additional (Optional) qualifiers:
   -namespace          menu       [*] By default all terms are returned.
                                  Searches can be limited to one or a few
                                  namespaces. (Values: data (Data entity);
                                  entity (Biological entity); format (Data
                                  format); identifier (Identifier); operation
                                  (Bioinformatics operation); resource (Data
                                  resource); topic (Field of bioinformatics
                                  study))

   Advanced (Unprompted) qualifiers:
   -sensitive          boolean    [N] By default, the query keywords are
                                  matched against the EDAM term names (and
                                  synonyms) only. This option also matches the
                                  keywords against the EDAM term definitions
                                  and will therefore (typically) report more
                                  matches.
   -subclasses         boolean    [N] Extend the query matches to include all
                                  terms which are specialisations (EDAM
                                  sub-classes) of the matched type.
   -obsolete           boolean    [N] The default behaviour is to not use or
                                  return obsolete terms. This option if set
                                  will include all terms.

   Associated qualifiers:

   "-outfile" associated qualifiers
   -odirectory2        string     Output directory
   -oformat2           string     Ontology term output format

   General qualifiers:
   -auto               boolean    Turn off prompts
   -stdout             boolean    Write first file to standard output
   -filter             boolean    Read first file from standard input, write
                                  first file to standard output
   -options            boolean    Prompt for standard and additional values
   -debug              boolean    Write debug output to program.dbg
   -verbose            boolean    Report some/full command line options
   -help               boolean    Report command line options and exit. More
                                  information on associated and general
                                  qualifiers can be found with -help -verbose
   -warning            boolean    Report warnings
   -error              boolean    Report errors
   -fatal              boolean    Report fatal errors
   -die                boolean    Report dying program messages
   -version            boolean    Report version number and exit

[Term]
id: EDAM:0002403
name: Sequence analysis
namespace: operation
def: Analyse one or more known molecular sequences.
subset: operation
is_a: EDAM:0002446 ! Sequence processing
relationship: has_input EDAM:0002044 ! Sequence {minCardinality=1}
relationship: has_output EDAM:0002955 ! Sequence report {minCardinality=1}
relationship: in_topic EDAM:0000080 ! Sequence

[Term]
id: EDAM:0001780
name: Sequence submission
namespace: operation
def: Submit a molecular sequence to a database.
subset: operation
is_a: EDAM:0002446 ! Sequence processing
relationship: has_input EDAM:0002044 ! Sequence {minCardinality=1}
relationship: in_topic EDAM:0000091 ! Data handling

[Term]
id: EDAM:0000564
name: Sequence rendering
namespace: operation
def: Visualise, format or render a molecular sequence, possibly with sequence features or properties shown.
subset: operation
is_a: EDAM:0000337 ! Plotting and rendering
is_a: EDAM:0002446 ! Sequence processing
relationship: has_input EDAM:0002044 ! Sequence {minCardinality=1}
relationship: has_output EDAM:0002969 ! Sequence image or plot {minCardinality=1}

[Term]
id: EDAM:0002446
name: Sequence processing
namespace: operation
def: Process (read and / or write) one or more molecular sequences and associated annotation.
subset: operation
is_a: EDAM:0002503 ! Sequence data processing
relationship: has_input EDAM:0002044 ! Sequence {minCardinality=0}
relationship: has_output EDAM:0002044 ! Sequence {minCardinality=0}

[Term]
id: EDAM:0000346
name: Sequence database search (by sequence)
namespace: operation
def: Search a sequence database and retrieve sequences that are similar to a query sequence.
subset: operation
synonym: "Sequence similarity search" EXACT []
is_a: EDAM:0000338 ! Sequence database search


  [Part of this file has been deleted for brevity]

namespace: operation
def: Design and optimize oligonucleotide probes for DNA microarrays, for example for transcription profiling of genes, or for genomes and gene families.
subset: operation
is_a: EDAM:0002419 ! Primer and probe design
relationship: has_input EDAM:0002977 ! Nucleic acid sequence
relationship: has_output EDAM:0000932 ! Oligonucleotide probe data {minCardinality=1}
relationship: in_topic EDAM:0000200 ! Microarrays
relationship: in_topic EDAM:0000632 ! Molecular probes or primers

[Term]
id: EDAM:0002478
name: Sequence analysis (nucleic acid)
namespace: operation
def: Analyse a nucleic acid sequence (using methods that are only applicable to nucleic acid sequences).
subset: operation
is_a: EDAM:0002403 ! Sequence analysis
is_a: EDAM:0002501 ! Nucleic acid data processing
relationship: has_input EDAM:0002977 ! Nucleic acid sequence {minCardinality=1}
relationship: in_topic EDAM:0000640 ! Nucleic acid sequences

[Term]
id: EDAM:0002452
name: Sequence cluster processing
namespace: operation
def: Process (read and / or write) a sequence cluster.
subset: operation
is_a: EDAM:0002503 ! Sequence data processing
relationship: has_input EDAM:0001235 ! Sequence cluster {minCardinality=0}
relationship: has_output EDAM:0001235 ! Sequence cluster {minCardinality=0}
relationship: in_topic EDAM:0000164 ! Sequence clustering

[Term]
id: EDAM:0000566
name: Sequence cluster rendering
namespace: operation
def: Visualise, format or render sequence clusters.
subset: operation
is_a: EDAM:0000337 ! Plotting and rendering
is_a: EDAM:0002452 ! Sequence cluster processing
relationship: has_input EDAM:0001235 ! Sequence cluster {minCardinality=1}

[Term]
id: EDAM:0000368
name: Sequence masking
namespace: operation
def: Mask characters in a molecular sequence (replacing those characters with a mask character).
comment: For example, SNPs or repeats in a DNA sequence might be masked.
subset: operation
is_a: EDAM:0000231 ! Sequence editing
relationship: has_input EDAM:0000851 ! Sequence mask character {minCardinality=1}