Last updated: 2020-12-22

Checks: 2 0

Knit directory: mash_application/analysis/

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R Markdown file: up-to-date

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Repository version: 1327a7e

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Ignored files:
    Ignored:    .DS_Store
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    analysis/.DS_Store
    Ignored:    analysis/.Rhistory
    Ignored:    analysis/include/.DS_Store
    Ignored:    code/.DS_Store
    Ignored:    code/dsc-differentV/code/.DS_Store
    Ignored:    code/dsc-differentV_signal/code/.DS_Store
    Ignored:    data/.DS_Store
    Ignored:    output/.DS_Store
    Ignored:    output/.sos/

Untracked files:
    Untracked:  analysis/Classify.Rmd
    Untracked:  analysis/EstimateCorMash.Rmd
    Untracked:  analysis/EstimateCorMaxMCMash.Rmd
    Untracked:  analysis/HierarchicalFlashSim.Rmd
    Untracked:  analysis/MashLowSignalGTEx4.Rmd
    Untracked:  analysis/OutlierDetection.Rmd
    Untracked:  analysis/OutlierDetection2.Rmd
    Untracked:  analysis/OutlierDetection3.Rmd
    Untracked:  analysis/OutlierDetection4.Rmd
    Untracked:  analysis/mash_missing_row.Rmd
    Untracked:  code/GTExNullModel.R
    Untracked:  code/MashClassify.R
    Untracked:  code/MashCorResult.R
    Untracked:  code/MashCormVResult.R
    Untracked:  code/MashNULLCorResult.R
    Untracked:  code/MashSource.R
    Untracked:  code/Weight_plot.R
    Untracked:  code/addemV.R
    Untracked:  code/johnprocess.R
    Untracked:  code/sim_mean_sig.R
    Untracked:  code/summary.R
    Untracked:  data/Blischak_et_al_2015/
    Untracked:  data/scale_data.rds
    Untracked:  data/wasp_yuxin/
    Untracked:  output/AddEMV/
    Untracked:  output/CovED_UKBio_strong.rds
    Untracked:  output/CovED_UKBio_strong_Z.rds
    Untracked:  output/EstCorMLECompare/
    Untracked:  output/Flash_UKBio_strong.rds
    Untracked:  output/GTExNULLres/
    Untracked:  output/GTEx_2.5_nullData.rds
    Untracked:  output/GTEx_2.5_nullModel.rds
    Untracked:  output/GTEx_2.5_nullPermData.rds
    Untracked:  output/GTEx_2.5_nullPermModel.rds
    Untracked:  output/GTEx_3.5_nullData.rds
    Untracked:  output/GTEx_3.5_nullModel.rds
    Untracked:  output/GTEx_3.5_nullPermData.rds
    Untracked:  output/GTEx_3.5_nullPermModel.rds
    Untracked:  output/GTEx_3_nullData.rds
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    Untracked:  output/GTEx_3_nullPermModel.rds
    Untracked:  output/GTEx_4.5_nullData.rds
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    Untracked:  output/GTEx_4.5_nullPermData.rds
    Untracked:  output/GTEx_4.5_nullPermModel.rds
    Untracked:  output/GTEx_4_nullData.rds
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    Untracked:  output/GTEx_4_nullPermData.rds
    Untracked:  output/GTEx_4_nullPermModel.rds
    Untracked:  output/MASH.10.em2.result.rds
    Untracked:  output/MASH.10.mle.result.rds
    Untracked:  output/MashCorSim--midway/
    Untracked:  output/Mash_EE_Cov_0_plusR1.rds
    Untracked:  output/UKBio_mash_model.rds
    Untracked:  output/WASP/
    Untracked:  output/diff_v/
    Untracked:  output/diff_v_signal/
    Untracked:  output/dsc-mashr-est_v/
    Untracked:  output/mVIterations/
    Untracked:  output/mVMLEsubset/
    Untracked:  output/mVUlist/
    Untracked:  output/mVsubset/
    Untracked:  output/result.em.rds

Unstaged changes:
    Modified:   analysis/EstimateCor.Rmd
    Modified:   analysis/EstimateCorHeterR50.Rmd
    Modified:   analysis/WASPmash.Rmd
    Modified:   output/Flash_T2_0.rds
    Modified:   output/Flash_T2_0_mclust.rds
    Modified:   output/Mash_model_0_plusR1.rds
    Modified:   output/PresiAddVarCol.rds

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