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NEWS.md

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mppR 1.5.0

  • Modification replacement of the functions QTL_effect_main_QxE by QTL_effect_main_QEI and QTL_effect_QxEC by QTL_effect_main_QxEC to update the procedure to estimate the significance of the QTL by environment interaction of the parental allelic effects and the estimation of the sensitivity slope
  • Correction of a bug to calculate the significance of the QTLxE effect using the Wald test

mppR 1.4.0

  • Addition of function to perform multi-parent multi-environment QTL detection (mppGE_SIM, mppGE_CIM, mppGE_proc, etc.)
  • Addition of a new vignette to illustrate the multi-parent multi-environment QTL detection
  • Extra function (mppData_add_pheno, mppData_mdf_pheno) to manipulate mppData objects especially modify the phenotypic data

mppR 1.3.0

  • Correction of few problems to load BCsFt populations (IBD.mppData).
  • Addition of new options in MQE_proc: possibility to select a reference parent effect calculation, possibility to calculate a confidence interval for the QTL positions
  • Addition of new functions (QTL_forward, mpp_forward) to realize a MPP QTL detection using a forward regression strategy

mppR 1.2.1

  • Correction due to the fact that package synbreed was removed from CRAN
  • The possibility to do marker imputation was suppressed.
  • Small modification in the genetic effect plot. Inversion of color

mppR 1.2.0

  • Corrections of bugs affecting the presentation of the QTL additive effects in: QTL_gen_effects(), MQE_gen_effects(), and the QTL reports of mpp_proc() and MQE_proc()
  • Review of the vignette, small modifications in the documentation and in the error messages
  • Stop to update the branch 'mppR_clusthaplo'. Stay two branches: 'master' containing the largest version of the package with mixed models and direct call to clusthaplo, and 'mppR_CRAN' a reduced version without the mixed models and the call to clusthaplo.

mppR 1.1.11

  • Put dependency to the 'synbreed' package as suggested and not depends

mppR 1.1.10

  • version of the package contained on branch 'mppR_CRAN' published on CRAN

mppR 1.1.8

  • submission to CRAN
  • Revision: suppress the dependency to clusthaplo. Form two branches on Github: 'mppR_clusthaplo' (contain function to call clusthaplo) and 'mppR_CRAN'

mppR 1.1.7

  • publish mppR on Github