NEWS

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GWASpoly 2.13

• added "cM" option to LD.plot

GWASpoly 2.12

• minor fix to VCFdosage (n.minor=0)

GWASpoly 2.11

• Added argument max.loci to LD.plot

GWASpoly 2.10

• Added default for max.geno.freq
• Default value for LOCO in set.K was removed to avoid confusion. User must specify.
• VCF2dosage function added

GWASpoly 2.09

• Fixed error with model names in set.threshold

GWASpoly 2.08

• Changed default to bp.window=NULL for get.QTL

GWASpoly 2.07

• Fixed bug related to model names diplo-additive, diplo-general

GWASpoly 2.06

• Implemented leave-one-chromosome-out
• Can make Manhattan plot for one chromosome
• Can filter output from get.QTL based on window
• qq.plot now displays results for each chromosome separately
• created LD.plot function
• updated vignette with new dataset
• use package Matrix to store symmetric matrices

GWASpoly 2.05

• Added function fit.QTL

GWASpoly 2.04

• Fixed case of 1 marker per chromosome

GWASpoly 2.03

• Added horizontal line for the detection threshold in manhattan.plot

GWASpoly 2.02

• Fractional values of allele dosage are now allowed for the additive model
• Modified permutation test to preserve relationship between fixed effects and phenotypes

GWASpoly 2.01

• Added option for M.eff to set.threshold