Files in IMB-Computational-Genomics-Lab/scGPS
A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/CORE_clustering.R
R/CORE_clustering_bagging.R
R/DimReduction.R
R/MainLassoLDATraining.R
R/RcppExports.R
R/Utilities.R
R/day_2_cardio_cell_sample.R
R/day_5_cardio_cell_sample.R
R/scgps_object.R
R/scgps_prediction_summary.R
R/training_gene_sample.R
README.md
data/day_2_cardio_cell_sample.rda
data/day_5_cardio_cell_sample.rda
data/training_gene_sample.rda
man/CORE_bagging.Rd
man/CORE_clustering.Rd
man/CORE_subcluster.Rd
man/PCA.Rd
man/PrinComp_cpp.Rd
man/add_import.Rd
man/annotate_clusters.Rd
man/bootstrap_parallel.Rd
man/bootstrap_prediction.Rd
man/calcDist.Rd
man/calcDistArma.Rd
man/clustering.Rd
man/clustering_bagging.Rd
man/day_2_cardio_cell_sample.Rd
man/day_5_cardio_cell_sample.Rd
man/distvec.Rd
man/figures/packagePlan.png
man/figures/scGPSlogo.png
man/find_markers.Rd
man/find_optimal_stability.Rd
man/find_stability.Rd
man/mean_cpp.Rd
man/new_scGPS_object.Rd
man/new_summarized_scGPS_object.Rd
man/plot_CORE.Rd
man/plot_optimal_CORE.Rd
man/plot_reduced.Rd
man/predicting.Rd
man/rand_index.Rd
man/rcpp_Eucl_distance_NotPar.Rd
man/rcpp_parallel_distance.Rd
man/reformat_LASSO.Rd
man/sub_clustering.Rd
man/subset_cpp.Rd
man/summary_accuracy.Rd
man/summary_deviance.Rd
man/summary_prediction_lasso.Rd
man/summary_prediction_lda.Rd
man/tSNE.Rd
man/top_var.Rd
man/tp_cpp.Rd
man/training.Rd
man/training_gene_sample.Rd
man/var_cpp.Rd
src/.gitignore
src/Makevars
src/RcppExports.cpp
src/dist_mat_cpp.cpp
src/dist_parallel_cpp.cpp
src/utils_rcpp.cpp
tests/testthat.R
tests/testthat/test_Sample1.R
vignettes/vignette.Rmd
