GO Evidence Codes

Description

This function prints a textual description of the Gene Ontology evidence codes.

Usage

showGOEvidenceCodes()

getGOEvidenceCodes()

Value

These functions are used for their side effects of printing evidence codes and their description.

Author(s)

Laurent Gatto

Examples

showGOEvidenceCodes()
getGOEvidenceCodes()

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(pRoloc)
Loading required package: MSnbase
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Attaching package: 'BiocGenerics'

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Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

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  Read '?MSnbase' and references therein for information
  about the package and how to get started.


Attaching package: 'MSnbase'

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This is pRoloc version 1.12.4 
  Read '?pRoloc' and references therein for information
  about the package and how to get started.

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/pRoloc/showGOEvidenceCodes.Rd_%03d_medium.png", width=480, height=480)
> ### Name: showGOEvidenceCodes
> ### Title: GO Evidence Codes
> ### Aliases: getGOEvidenceCodes showGOEvidenceCodes
> 
> ### ** Examples
> 
> showGOEvidenceCodes()
GO Term Evidence Code
 Experimental Evidence Codes
  EXP: Inferred from Experiment
   IDA: Inferred from Direct Assay
   IPI: Inferred from Physical Interaction
   IMP: Inferred from Mutant Phenotype
   IGI: Inferred from Genetic Interaction
   IEP: Inferred from Expression Pattern
 Computational Analysis Evidence Codes
  ISS: Inferred from Sequence or Structural Similarity
   ISO: Inferred from Sequence Orthology
   ISA: Inferred from Sequence Alignment
   ISM: Inferred from Sequence Model
   IGC: Inferred from Genomic Context
   IBA: Inferred from Biological aspect of Ancestor
   IBD: Inferred from Biological aspect of Descendant
   IKR: Inferred from Key Residues
   IRD: Inferred from Rapid Divergence
   RCA: inferred from Reviewed Computational Analysis
 Author Statement Evidence Codes
   TAS: Traceable Author Statement
   NAS: Non-traceable Author Statement
 Curator Statement Evidence Codes
   IC: Inferred by Curator
   ND: No biological Data available
 Automatically-assigned Evidence Codes
   IEA: Inferred from Electronic Annotation
 Obsolete Evidence Codes
   NR: Not Recorded
> getGOEvidenceCodes()
 [1] "EXP" "IDA" "IPI" "IMP" "IGI" "IEP" "ISS" "ISO" "ISA" "ISM" "IGC" "IBA"
[13] "IBD" "IKR" "IRD" "RCA" "TAS" "NAS" "IC"  "ND"  "IEA" "NR" 
> 
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> dev.off()
null device 
          1 
>