Index

A

add() (gseapy.base.GMT method) add_background() (gseapy.enrichr.EnrichrAPI method)

add_filter() (gseapy.biomart.Biomart method) add_list() (gseapy.enrichr.EnrichrAPI method) add_list_speedrichr() (gseapy.enrichr.EnrichrAPI method)

B

barplot() (in module gseapy.plot)

Biomart (class in gseapy.biomart)

C

calc_metric() (gseapy.gsea.GSEA method) calc_pvalues() (in module gseapy.stats) check_genes() (gseapy.enrichr.Enrichr method)

check_uppercase() (gseapy.base.GSEAbase method) (gseapy.enrichr.Enrichr method) close() (gseapy.enrichr.Enrichr method)

D

dotplot() (in module gseapy.plot)

download_libraries() (gseapy.enrichr.EnrichrAPI method) download_library() (in module gseapy.parser)

E

enrich() (in module gseapy) enrich_local() (gseapy.enrichr.Enrichr method) enrich_online() (gseapy.enrichr.Enrichr method) enrichment_map() (in module gseapy.plot) enrichment_score() (gseapy.base.GSEAbase method) Enrichr (class in gseapy.enrichr)

enrichr() (in module gseapy) EnrichrAPI (class in gseapy.enrichr) EnrichrAPIError EnrichrError EnrichrNetworkError EnrichrParseError EnrichrValidationError

F

fdrcorrection() (in module gseapy.stats) filter() (gseapy.base.GMT method)

filter_gmt() (gseapy.enrichr.Enrichr method) find_terms_by_gene() (gseapy.enrichr.EnrichrAPI method)

G

get() (gseapy.base.GMT method) get_attributes() (gseapy.biomart.Biomart method) get_background() (gseapy.enrichr.Enrichr method) get_background_enrichment() (gseapy.enrichr.EnrichrAPI method) get_datasets() (gseapy.biomart.Biomart method) get_enrichment() (gseapy.enrichr.EnrichrAPI method) get_filters() (gseapy.biomart.Biomart method) get_libraries() (gseapy.base.GSEAbase method) (gseapy.enrichr.EnrichrAPI method) get_library() (in module gseapy.parser) get_library_name() (in module gseapy.parser) get_marts() (gseapy.biomart.Biomart method) get_metadata() (gseapy.base.GMT method) get_results() (gseapy.enrichr.Enrichr method) get_results_dataframe() (gseapy.enrichr.EnrichrAPI method) get_results_with_background() (gseapy.enrichr.Enrichr method) get_xml_body() (gseapy.biomart.Biomart method) GMT (class in gseapy.base) GSEA (class in gseapy.gsea) gsea() (in module gseapy) gsea_cls_parser() (in module gseapy.parser) gsea_edb_parser() (gseapy.gsea.Replot method) (in module gseapy.parser)

GSEAbase (class in gseapy.base) gseaplot() (in module gseapy.plot) gseaplot2() (in module gseapy.plot) gseapy module gseapy.base module gseapy.biomart module gseapy.enrichr module gseapy.gsea module gseapy.parser module gseapy.plot module gseapy.scipalette module gseapy.stats module

H

heatmap() (in module gseapy.plot)

I

inverse() (gseapy.plot.MidpointNormalize method)

items() (gseapy.base.GMT method)

L

load_classes() (gseapy.gsea.GSEA method) load_data() (gseapy.gsea.GSEA method)

load_gmt() (gseapy.base.GSEAbase method) load_gmt_only() (gseapy.base.GSEAbase method) load_ranking() (gseapy.gsea.Prerank method)

M

make_unique() (gseapy.base.GSEAbase method) MidpointNormalize (class in gseapy.plot) module gseapy gseapy.base gseapy.biomart gseapy.enrichr gseapy.gsea gseapy.parser gseapy.plot gseapy.scipalette gseapy.stats

multiple_testing_correction() (in module gseapy.stats)

P

parse_background() (gseapy.enrichr.Enrichr method) parse_genelists() (gseapy.enrichr.Enrichr method) parse_genesets() (gseapy.enrichr.Enrichr method) parse_gmt() (gseapy.base.GSEAbase method)

plot() (gseapy.base.GSEAbase method) prepare_outdir() (gseapy.base.GSEAbase method) (gseapy.enrichr.Enrichr method) Prerank (class in gseapy.gsea) prerank() (in module gseapy)

Q

query() (gseapy.biomart.Biomart method)

query_simple() (gseapy.biomart.Biomart method)

R

read() (gseapy.base.GMT class method) read_gmt() (in module gseapy.parser) Replot (class in gseapy.gsea) replot() (in module gseapy) results (gseapy.base.GSEAbase property)

ringplot() (in module gseapy.plot) run() (gseapy.enrichr.Enrichr method) (gseapy.gsea.GSEA method) (gseapy.gsea.Prerank method) (gseapy.gsea.Replot method)

S

send_genes() (gseapy.enrichr.Enrichr method)

set_organism() (gseapy.enrichr.Enrichr method) ssgsea() (in module gseapy)

T

to_cls() (gseapy.gsea.GSEA method)

to_df() (gseapy.base.GSEAbase method)

V

view_list() (gseapy.enrichr.EnrichrAPI method)

W

write() (gseapy.base.GMT method)

Z

zscore() (in module gseapy.plot)