Index

A

Annotation module

Annotator (class in Annotation)

B

BODY (Annotation.Location attribute)

C

check_file() (Core.ParseFile method) ChrLoc (class in Annotation)

Core module CpG_location (class in Annotation)

E

EXON (Annotation.Location attribute)

F

Feature (class in Annotation)

G

get_all_beta() (in module Core) get_all_probe_ids() (Annotation.Annotator method) get_all_probes() (Annotation.Annotator method) get_all_sample_name() (in module Core) get_coord() (Annotation.Annotator method) get_genes_from_probes() (in module Core) get_id_beta() (in module Core) get_keys() (Annotation.Annotator method) get_number() (Annotation.Annotator method) get_probe() (Annotation.Annotator method) get_probe_avg() (in module Core) get_probes() (Annotation.Annotator method) (in module Annotation) get_probes_avg() (in module Core)

get_probes_from_chr_loc() (Annotation.Annotator method) get_probes_from_cpg() (Annotation.Annotator method) get_probes_from_feature() (in module Annotation) get_probes_from_gene() (Annotation.Annotator method) get_probes_from_loc() (Annotation.Annotator method) get_probes_id_from_chr_loc() (Annotation.Annotator method) get_probes_id_from_cpg() (Annotation.Annotator method) get_probes_id_from_gene() (Annotation.Annotator method) get_probes_id_from_loc() (Annotation.Annotator method) get_probes_id_from_probe() (Annotation.Annotator method) get_sample_by_name() (in module Core) get_sample_by_no() (in module Core) get_samples() (Core.ParseBatch method) (Core.ParseFile method) Group (class in Core)

I

ISLAND (Annotation.CpG_location attribute)

L

Location (class in Annotation)

M

module Annotation Core

N

NSHELF (Annotation.CpG_location attribute)

NSHORE (Annotation.CpG_location attribute)

P

ParseBatch (class in Core) ParseConfig (class in Core)

ParseFile (class in Core) Probe (class in Annotation) probes_to_bed() (in module Core)

R

remove_snp_probes() (Annotation.Annotator method)

S

Sample (class in Core) samples_to_bed() (in module Core) SNP (class in Annotation)

sort_coord_probe() (Annotation.Annotator method) SSHELF (Annotation.CpG_location attribute) SSHORE (Annotation.CpG_location attribute)

T

TSS1500 (Annotation.Location attribute)

TSS200 (Annotation.Location attribute)

U

UTR3 (Annotation.Location attribute)

UTR5 (Annotation.Location attribute)

W

write_data() (in module Core)