Index

A | B | C | E | F | G | H | I | L | M | N | O | P | R | S | T

A

add_gene() (EIYBrowse.tracks.genes.GeneRows method)
add_matrices_to_db() (EIYBrowse.importers.Interactions.MatrixLoader method)
add_matrix_to_db() (EIYBrowse.importers.Interactions.MatrixLoader method)
add_windows() (EIYBrowse.importers.Interactions.HiCWindows method)
add_windows_to_db() (in module EIYBrowse.importers.Windows)

B

bins_from_region() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)

C

chunker() (in module EIYBrowse.importers.Interactions)
colormap_from_config() (in module EIYBrowse.tracks.interactions)

E

EIYBrowse (module)
EIYBrowse.exceptions (module)
EIYBrowse.filetypes (module)
EIYBrowse.filetypes.interactions_db (module)
EIYBrowse.filetypes.my5c_folder (module)
EIYBrowse.importers (module)
EIYBrowse.importers.Interactions (module)
EIYBrowse.importers.Windows (module)
EIYBrowse.tracks (module)
EIYBrowse.tracks.base (module)
EIYBrowse.tracks.genes (module)
EIYBrowse.tracks.genomic_signal (module)
EIYBrowse.tracks.interactions (module)
EIYBrowse.tracks.interval (module)
EIYBrowse.tracks.location (module)
EIYBrowse.tracks.scale_bar (module)
EIYBrowse.utils (module)

F

FileTrack (class in EIYBrowse.tracks.base)
find_chrom_file() (EIYBrowse.filetypes.my5c_folder.My5CFolder method)
format_genomic_distance() (in module EIYBrowse.utils)
format_window() (in module EIYBrowse.filetypes.my5c_folder)
format_windows() (in module EIYBrowse.filetypes.my5c_folder)
from_config_dict() (EIYBrowse.tracks.base.FileTrack class method)
(EIYBrowse.tracks.base.Track class method)
(EIYBrowse.tracks.interactions.SquareInteractionsTrack class method)

G

GeneRows (class in EIYBrowse.tracks.genes)
GeneTrack (class in EIYBrowse.tracks.genes)
GenomicIntervalTrack (class in EIYBrowse.tracks.interval)
GenomicSignalTrack (class in EIYBrowse.tracks.genomic_signal)
get_bin_from_location() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)
get_chrom_string() (EIYBrowse.importers.Interactions.MatrixLoader method)
get_config() (EIYBrowse.tracks.base.Track method)
(EIYBrowse.tracks.genes.GeneTrack method)
(EIYBrowse.tracks.genomic_signal.GenomicSignalTrack method)
(EIYBrowse.tracks.interactions.SquareInteractionsTrack method)
(EIYBrowse.tracks.interactions.TriangularInteractionsTrack method)
(EIYBrowse.tracks.interval.GenomicIntervalTrack method)
(EIYBrowse.tracks.location.LocationTrack method)
(EIYBrowse.tracks.scale_bar.ScaleBarTrack method)
get_data() (EIYBrowse.importers.Interactions.HiCLoader method)
(EIYBrowse.importers.Interactions.NpzLoader method)
get_data_from_bins() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)
get_file_opener() (in module EIYBrowse.filetypes)
get_gene_row() (EIYBrowse.tracks.genes.GeneRows method)
get_interactions() (EIYBrowse.filetypes.my5c_folder.My5cFile method)
get_location_from_bin() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)
get_my5c_file() (EIYBrowse.filetypes.my5c_folder.My5CFolder method)
get_quantile_scaled_normalizer() (in module EIYBrowse.tracks.interactions)
get_scale_bar_limits() (EIYBrowse.tracks.scale_bar.ScaleBarTrack method)
get_scale_bar_size() (EIYBrowse.tracks.scale_bar.ScaleBarTrack method)
get_start_stop_on_axes() (in module EIYBrowse.tracks.genes)
get_window_indexes() (in module EIYBrowse.importers.Windows)

H

HiCLoader (class in EIYBrowse.importers.Interactions)
HiCWindows (class in EIYBrowse.importers.Interactions)

I

ImproperlyConfigured
index_from_interval() (EIYBrowse.filetypes.my5c_folder.My5cFile method)
indices_to_interval() (EIYBrowse.filetypes.my5c_folder.My5cFile method)
interactions() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)
(EIYBrowse.filetypes.my5c_folder.My5CFolder method)
InteractionsDbFile (class in EIYBrowse.filetypes.interactions_db)
InvalidChromError

L

LocationTrack (class in EIYBrowse.tracks.location)

M

MatrixLoader (class in EIYBrowse.importers.Interactions)
My5cFile (class in EIYBrowse.filetypes.my5c_folder)
My5CFolder (class in EIYBrowse.filetypes.my5c_folder)

N

NoFilesError
normalizer_from_config() (in module EIYBrowse.tracks.interactions)
NpzLoader (class in EIYBrowse.importers.Interactions)

O

open_file() (in module EIYBrowse.filetypes)

P

plot() (EIYBrowse.tracks.base.Track method)
(EIYBrowse.tracks.location.LocationTrack method)
plot_exon() (EIYBrowse.tracks.genes.GeneTrack method)
plot_gene_body() (EIYBrowse.tracks.genes.GeneTrack method)
plot_gene_dict() (EIYBrowse.tracks.genes.GeneTrack method)
plot_name() (EIYBrowse.tracks.genes.GeneTrack method)

R

read_bed_windows() (in module EIYBrowse.importers.Windows)
region_from_bins() (EIYBrowse.filetypes.interactions_db.InteractionsDbFile method)
rotate_heatmap() (in module EIYBrowse.tracks.interactions)

S

ScaleBarTrack (class in EIYBrowse.tracks.scale_bar)
SquareInteractionsTrack (class in EIYBrowse.tracks.interactions)

T

TooManyFilesError
total_rows() (EIYBrowse.tracks.genes.GeneTrack method)
Track (class in EIYBrowse.tracks.base)
TriangularInteractionsTrack (class in EIYBrowse.tracks.interactions)