Package org.biojava.nbio.core.sequence.io.embl

Class EmblReference

java.lang.Object
org.biojava.nbio.core.sequence.io.embl.EmblReference
public class EmblReference extends Object
This class contains the processed data of embl file that contains the referenceNumber, referenceComment, referencePosition referenceCrossReference, referenceGroup, referenceAuthor referenceTitle, referenceLocation
Since:
5.0.0
Author:
Noor Aldeen Al Mbaidin

  • Constructor Details

  • Method Details

    • getReferenceNumber

      public String getReferenceNumber()
      The RN (Reference Number) line gives a unique number to each reference Citation within an entry. This number is used to designate the reference in comments and in the feature table.
      Returns:
      referenceNumber

    • setReferenceNumber

      public void setReferenceNumber(String referenceNumber)

    • getReferenceComment

      public String getReferenceComment()
      The RC (Reference Comment) linetype is an optional linetype which appears if The reference has a comment.
      Returns:
      String

    • setReferenceComment

      public void setReferenceComment(String referenceComment)

    • getReferencePosition

      public String getReferencePosition()
      The RP (Reference Position) linetype is an optional linetype which appears if one or more contiguous base spans of the presented sequence can be attributed to the reference in question.
      Returns:
      String

    • setReferencePosition

      public void setReferencePosition(String referencePosition)

    • getReferenceCrossReference

      public String getReferenceCrossReference()
      The RX (reference cross-reference) linetype is an optional linetype which appears if one or more contiguous base spans of the presented sequence can be attributed to the reference in question.
      Returns:
      String

    • setReferenceCrossReference

      public void setReferenceCrossReference(String referenceCrossReference)

    • getReferenceGroup

      public String getReferenceGroup()
      The RG (Reference Group) lines list the working groups/consortia that produced the record.
      Returns:
      String

    • setReferenceGroup

      public void setReferenceGroup(String referenceGroup)

    • getReferenceAuthor

      public String getReferenceAuthor()
      The RA (Reference Author) lines list the authors of the paper (or other work) cited. All of the authors are included, and are listed in the order given in the paper.
      Returns:
      String

    • setReferenceAuthor

      public void setReferenceAuthor(String referenceAuthor)

    • getReferenceTitle

      public String getReferenceTitle()
      The RT (Reference Title) lines give the title of the paper (or other work) as exactly as is possible given the limitations of computer character sets.
      Returns:
      String

    • setReferenceTitle

      public void setReferenceTitle(String referenceTitle)

    • getReferenceLocation

      public String getReferenceLocation()
      The RL (Reference Location) line contains the conventional citation information for the reference.
      Returns:
      String

    • setReferenceLocation

      public void setReferenceLocation(String referenceLocation)

    • copyEmblReference

      public EmblReference copyEmblReference(EmblReference emblReference)
      return copy of EmblReference
      Parameters:
      emblReference -
      Returns:
      EmblReference