Index

C

clustering() (in module funki.analysis)

copy() (funki.input.DataSet method)

D

DataSet (class in funki.input)

diff_exp() (in module funki.analysis) differential_expression() (in module funki.pipelines)

E

enrich() (in module funki.analysis)

enrichment_analysis() (in module funki.pipelines)

F

funki.analysis module funki.input module funki.pipelines module

funki.plots module funki.preprocessing module

H

harmonize() (in module funki.preprocessing)

L

label_transfer() (in module funki.analysis)

load_params() (funki.input.DataSet method)

M

module funki.analysis funki.input funki.pipelines funki.plots funki.preprocessing

P

plot_counts_vs_n_genes() (in module funki.plots) plot_counts_vs_pct_mito() (in module funki.plots) plot_dex() (in module funki.plots) plot_enrich() (in module funki.plots) plot_highest_expr() (in module funki.plots)

plot_n_genes() (in module funki.plots) plot_pca() (in module funki.plots) plot_pct_counts_mito() (in module funki.plots) plot_total_counts() (in module funki.plots) plot_tsne() (in module funki.plots) plot_umap() (in module funki.plots)

R

read() (in module funki.input)

S

save_params() (funki.input.DataSet method) sc_quality_control() (in module funki.pipelines) sc_trans_filter() (in module funki.preprocessing)

sc_trans_normalize_total() (in module funki.preprocessing) sc_trans_qc_metrics() (in module funki.analysis) sum_duplicated_gene_counts() (funki.input.DataSet method)