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Tag: field::biology:sequence
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Description: Biological sequence analysis
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Tag: field::biology:sequence:dna
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Tag: field::biology:sequence:rna
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Tag: field::biology:sequence:protein
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Tag: # I would rather move the :sequence tags to the works-with:: facet -- Charles
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Tag: field::biology:structural
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Tag: field::biology:molecular
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Tag: field::biology:evolution
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Tag: field::biology:interaction
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Tag: field::biology:genomics
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Tag: field::biology:proteomics
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Tag: field::biology:metabolomics
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Tag: field::biology:transcriptiomics
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Tag: field::biology:systems
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Tag: field::mathematics:graphs
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Tag: field::medicine:imaging
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Tag: field::medicine:practice
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Tag: field::medicine:odontology
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Tag: field::medicine:his
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Tag: field::statistics:clustering
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Tag: field::statistics:classifyer
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Tag: hardware::input:dmm
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Tag: implemented-in::ACD # The AJAX Command Definition (ACD) languag, used by EMBOSS, has nothing to do with web 2.0
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Tag: suite::emboss # will also be used for the embassy pacakges
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Tag: use::annotation
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Tag: use::analysis # further depths would be redundant with the works-with:: facet
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Tag: use::comparison
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Tag: use::comparison:alignment
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Tag: use::comparison:phylogeny
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Tag: use::experiment
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Tag: use::experiment:molecular-biology
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Tag: use::measuring
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Tag: use::database:index # Or just use::index since there is already a works-with::db tag ?
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Tag: use::database:query # Or just use::query since there is already a works-with::db tag ?
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Tag: works-with::device
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Tag: works-with::sequence:desoxyribonucleic
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Tag: works-with::sequence:ribonucleic # or just sequence:nucleic?
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Tag: # I think that sequence:biolgical would be superfluous because of the field::biology tag
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Tag: works-with::sequence:peptidic
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Tag: works-with::structure # or can it be unified with works-with::3Dmodel?
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Tag: works-with-format::abi # Applied BIosystems. This one is not plaintext, I think.
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Tag: works-with-format::fitch # neither this one
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Tag: works-with-format::biology:fasta
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Tag: works-with-format::biology:affy:dat
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Description: Scanner pixel-level raw data of Affymetrix microarray
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Tag: works-with-format::biology:affy:cel
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Description: Probe-level raw data of Affymetrix microarray
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# I would rather move the above formats in the ::plaintext subfacet -- Charles
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# This is fine with me. And what about affy:cdf? This could go to plaintext:cdf directly? -- Steffen
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Tag: works-with-format::plaintext:acedb
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Tag: works-with-format::plaintext:aln
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Description: Nucleotide or Protein sequence alignment
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Tag: works-with-format::plaintext:asn1
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Description: Abstract Syntax Notation 1
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Tag: works-with-format::plaintext:codata
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Tag: works-with-format::plaintext:dbid
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Tag: works-with-format::plaintext:embl
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Description: EMBL nucleotide sequence database format
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This field should only be used for data that
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is storing nucleotide data. Other historiacal
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derivatives (PRINTS, UniProt, ...) should have
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their own respective entry.
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Tag: works-with-format::plaintext:experiment
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Tag: works-with-format::plaintext:fasta
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Tag: works-with-format::plaintext:gcg
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Tag: works-with-format::plaintext:gff
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Tag: works-with-format::plaintext:hennig86
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Tag: works-with-format::plaintext:ij
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Tag: works-with-format::plaintext:intact
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Description: an interaction database -- Steffen
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Tag: works-with-format::plaintext:interpro
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Description: protein domain meta database -- Steffen
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Tag: works-with-format::plaintext:jackknifer
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Tag: works-with-format::plaintext:jackknifernon
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Tag: works-with-format::plaintext:mega
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Tag: works-with-format::plaintext:meganon
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Tag: works-with-format::plaintext:msf
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Tag: works-with-format::plaintext:nbrf
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Tag: works-with-format::plaintext:ncbi
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Tag: works-with-format::plaintext:nexus
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Tag: works-with-format::plaintext:nexusnon
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Tag: works-with-format::plaintext:paup
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Tag: works-with-format::plaintext:paupnon
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Tag: works-with-format::plaintext:pdb
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Description: Protein structure data
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Tag: works-with-format::plaintext:pfam
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Tag: works-with-format::plaintext:phylip
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Tag: works-with-format::plaintext:phylipnon
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Description: what is this? -- Steffen
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Tag: works-with-format::plaintext:pir
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Tag: works-with-format::plaintext:prints # protein domain/family database
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Tag: works-with-format::plaintext:raw
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Description: OK, that one advocates against the use of plaintext.
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Tag: works-with-format::plaintext:selex
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Tag: works-with-format::plaintext:staden
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Tag: works-with-format::plaintext:strider
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Tag: works-with-format::plaintext:stockholm
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Tag: works-with-format::plaintext:swissprot
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Tag: works-with-format::plaintext:treecon
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Tag: works-with-format::plaintext:affy:dat
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Tag: works-with-format::plaintext:affy:cel
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Tag: works-with-format::medicine:practice:xDT
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Tag: works-with-format::medicine:DICOM
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Description: or works-with-format::dicom ? -- Charles
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I would like to prepare for SNOMED, ICD10 and several others -- Steffen
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# an earlier idea of mine to separate different
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# kinds of prediction methods - appreciated?
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# "use" rather than "made-of"?
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# -- Steffen
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Tag: made-of::algorithm:dynamic-programming
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Tag: made-of::algorithm:hashing
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Tag: made-of::algorithm:hidden-markov-model
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Tag: made-of::algorithm:neural-network
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Tag: made-of::algorithm:dimension-reduction
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Description: Comprises ICA and PCA, spring-embedding -- Steffen
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# some less arguable debtags:
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Tag: made-of::data:r # For the statistics environment http://www.r-project.org
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