Global functions | |
---|---|
$,DPT-method | Man page |
$,DiffusionMap-method | Man page |
$.DPT | Man page |
$.DiffusionMap | Man page |
.onLoad | Source code |
Coercion methods | Man page |
DPT | Man page Source code |
DPT matrix methods | Man page |
DPT methods | Man page |
DPT-class | Man page |
DiffusionMap | Man page Source code |
DiffusionMap accession methods | Man page |
DiffusionMap methods | Man page |
DiffusionMap-class | Man page |
DiffusionMapCompat | Man page Source code |
ExpressionSet helper methods | Man page |
Extraction methods | Man page |
Gene Relevance methods | Man page |
Gene Relevance plotting | Man page |
GeneRelevance-class | Man page |
Sigmas | Man page |
Sigmas-class | Man page |
Sigmas-methods | Man page |
[,DPT,index,index,logicalOrMissing-method | Man page |
[,DPT,index,missing,logicalOrMissing-method | Man page |
[,DPT,missing,index,logicalOrMissing-method | Man page |
[,DPT,missing,missing,logicalOrMissing-method | Man page |
[.DPT | Man page |
[[,DPT,character,missing-method | Man page |
[[,DPT,index,index-method | Man page |
[[,DiffusionMap,character,missing-method | Man page |
[[.DPT | Man page |
[[.DiffusionMap | Man page |
accumulated_transitions | Source code |
as.ExpressionSet | Man page |
as.ExpressionSet,data.frame-method | Man page |
as.Matrix.dist | Source code |
as.data.frame,DPT-method | Man page |
as.data.frame,DiffusionMap-method | Man page |
as.data.frame.DPT | Man page |
as.data.frame.DiffusionMap | Man page |
as.matrix,DPT-method | Man page |
as.matrix.DPT | Man page |
auto_branch | Source code |
average_path | Source code |
branch_divide | Man page Source code |
branchcut | Source code |
censoring | Source code |
censoring_impl | Source code |
char_fallback | Source code |
check_dpt | Source code |
colorlegend | Man page Source code |
continuous_colors | Source code |
cube.helix | Man page Source code |
cube_helix | Man page Source code |
cut_branches | Source code |
data:guo | Man page |
data:guo_norm | Man page |
dataset | Man page |
dataset,DPT-method | Man page |
dataset,DiffusionMap-method | Man page |
dataset,GeneRelevance-method | Man page |
dataset.DPT | Man page |
dataset.GeneRelevance | Man page |
dataset<- | Man page |
dataset<-,DPT-method | Man page |
dataset<-,DiffusionMap-method | Man page |
dataset<-,GeneRelevance-method | Man page |
dataset_extract_doublematrix | Source code |
dataset_get_feature | Source code |
dataset_n_features | Source code |
dataset_n_observations | Source code |
dataset_names | Source code |
dataset_to_df | Source code |
decomp_transitions | Source code |
destiny | Man page |
destiny generics | Man page |
destiny-deprecated | Man page |
differential_map | Source code |
dim,DPT-method | Man page |
dim.DPT | Man page |
distance | Man page |
distance,DiffusionMap-method | Man page |
distance,GeneRelevance-method | Man page |
distance<- | Man page |
distance<-,DiffusionMap-method | Man page |
distance<-,GeneRelevance-method | Man page |
dm.predict | Man page Source code |
dm_predict | Man page Source code |
dpt_for_branch | Source code |
dummy_dpt | Source code |
eig.decomp | Man page Source code |
eig_decomp | Man page Source code |
eigenvalues | Man page |
eigenvalues,DiffusionMap-method | Man page |
eigenvalues<- | Man page |
eigenvalues<-,DiffusionMap-method | Man page |
eigenvectors | Man page |
eigenvectors,DiffusionMap-method | Man page |
eigenvectors<- | Man page |
eigenvectors<-,DiffusionMap-method | Man page |
emptyplot | Source code |
featureNames,GeneRelevance-method | Man page |
featureNames.GeneRelevance | Man page |
featureNames<-,GeneRelevance,characterOrFactor-method | Man page |
find.dm.k | Man page Source code |
find.sigmas | Man page Source code |
find_dm_k | Man page Source code |
find_knn | Man page Source code |
find_sigmas | Man page Source code |
find_tips | Man page Source code |
flipped_dcs | Source code |
fortify.DPT | Man page Source code |
fortify.DiffusionMap | Man page Source code |
gene_relevance | Man page |
gene_relevance,DiffusionMap,missing-method | Man page |
gene_relevance,matrix,dMatrixOrMatrix-method | Man page |
get_coords | Source code |
get_dim_range | Source code |
get_explicit_col | Source code |
get_knn | Source code |
get_louvain_clusters | Source code |
get_norm_p | Source code |
get_pca | Source code |
get_plot_fn | Source code |
get_sigmas | Source code |
get_smoothing | Source code |
guo | Man page |
guo_norm | Man page |
hasattr | Source code |
hcl.colors | Source code |
idx_list_to_vec | Source code |
is_distmatrix | Source code |
kendall_finite_cor | Source code |
lWhich | Man page Source code |
l_which | Man page Source code |
names,DPT-method | Man page |
names,DiffusionMap-method | Man page |
names.DPT | Man page |
names.DiffusionMap | Man page |
ncol,DPT-method | Man page |
ncol.DPT | Man page |
no_censoring | Source code |
nrow,DPT-method | Man page |
nrow.DPT | Man page |
optimal.sigma | Man page Source code |
optimal_sigma | Man page |
optimal_sigma,DiffusionMap-method | Man page |
optimal_sigma,Sigmas-method | Man page |
organize_branches | Source code |
pca_scores | Source code |
plot,DPT,missing-method | Man page |
plot,DPT,numeric-method | Man page |
plot,DiffusionMap,missing-method | Man page |
plot,DiffusionMap,numeric-method | Man page |
plot,GeneRelevance,character-method | Man page |
plot,GeneRelevance,missing-method | Man page |
plot,GeneRelevance,numeric-method | Man page |
plot,Sigmas,missing-method | Man page |
plot.DPT | Man page Source code |
plot.DiffusionMap | Man page Source code |
plot.Sigmas | Man page |
plot_differential_map | Man page |
plot_differential_map,DiffusionMap,missing-method | Man page |
plot_differential_map,GeneRelevance,missing-method | Man page |
plot_differential_map,matrix,matrix-method | Man page |
plot_differential_map_impl | Source code |
plot_gene_relevance | Man page |
plot_gene_relevance,DiffusionMap,missing-method | Man page |
plot_gene_relevance,GeneRelevance,missing-method | Man page |
plot_gene_relevance,matrix,matrix-method | Man page |
plot_gene_relevance_impl | Source code |
plot_gene_relevance_rank | Man page |
plot_gene_relevance_rank,DiffusionMap,missing-method | Man page |
plot_gene_relevance_rank,GeneRelevance,missing-method | Man page |
plot_gene_relevance_rank,matrix,matrix-method | Man page |
plot_gene_relevance_rank_impl | Source code |
plot_gradient_map | Man page Source code |
pr_rankcor | Source code |
pr_rankcor_prefun | Source code |
predict_censoring | Source code |
predict_censoring_impl | Source code |
print,DiffusionMap-method | Man page |
print,GeneRelevance-method | Man page |
print,Sigmas-method | Man page |
print.DiffusionMap | Man page |
projection_dist | Man page Source code |
proxy_add_rankcor_simil | Source code |
random_root | Man page Source code |
rank_mat | Source code |
read.ExpressionSet | Man page Source code |
rescale_mat | Source code |
runs | Source code |
scale_color_cube_helix | Man page |
scale_colour_cube_helix | Man page Source code |
scale_cube_helix | Source code |
scale_fill_cube_helix | Man page Source code |
set_palette | Source code |
show,DiffusionMap-method | Man page |
show,GeneRelevance-method | Man page |
show,Sigmas-method | Man page |
show.DiffusionMap | Man page |
sigma_msg | Source code |
sigmas | Man page |
sigmas,DiffusionMap-method | Man page |
sigmas<- | Man page |
sigmas<-,DiffusionMap-method | Man page |
stopifnot_distmatrix | Source code |
stopifsmall | Source code |
symmetricise | Source code |
test_censoring | Source code |
theme_really_minimal | Source code |
tips | Man page Source code |
tipstats | Source code |
transition_probabilities | Source code |
updateObject methods | Man page |
updateObject,DiffusionMap-method | Man page |
updateObject,GeneRelevance-method | Man page |
updateObject,Sigmas-method | Man page |
updateObject.DiffusionMap | Man page |
updateObject.GeneRelevance | Man page |
updateObject.Sigmas | Man page |
update_slot_names | Source code |
upper.tri.sparse | Source code |
validate_censoring | Source code |
verbose_timing | Source code |
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