net.maizegenetics.analysis.gbs.v2

Class GBSEnzyme

net.maizegenetics.analysis.gbs.v2.GBSEnzyme

Deprecated.

public class GBSEnzyme

Determines which cut sites to look for, and sets them, based on the enzyme used to generate the GBS library. For two-enzyme GBS both enzymes MUST be specified and separated by a dash "-". e.g. PstI-MspI, SbfI-MspI The enzyme pair "PstI-EcoT22I" uses the Elshire common adapter while PstI-MspI, PstI-TaqI, and SbfI-MspI use a Y adapter (Poland et al. 2012)

Constructor Detail

GBSEnzyme

public GBSEnzyme(java.lang.String enzyme)

Deprecated.

Parameters:

enzyme - The name of the enzyme (case insensitive)

Method Detail

enzyme

public java.lang.String enzyme()

Deprecated.

initialCutSiteRemnant

public java.lang.String[] initialCutSiteRemnant()

Deprecated.

likelyReadEnd

public java.lang.String[] likelyReadEnd()

Deprecated.

readEndCutSiteRemnantLength

public int readEndCutSiteRemnantLength()

Deprecated.