Index

B | C | D | E | F | H | L | P | R | S | T | W

B

bin_cis_array() (in module hifive.fivec_binning)
(in module hifive.hic_binning)
bin_trans_array() (in module hifive.hic_binning)

C

cis_heatmap() (hifive.fivec.FiveC method)
(hifive.hic.HiC method)

D

dynamically_bin_cis_array() (in module hifive.fivec_binning)
(in module hifive.hic_binning)
dynamically_bin_trans_array() (in module hifive.fivec_binning)
(in module hifive.hic_binning)

E

export_to_mat() (hifive.hic_data.HiCData method)

F

Fend (class in hifive.fend)
filter_fends() (hifive.hic.HiC method)
filter_fragments() (hifive.fivec.FiveC method)
find_binning_fend_corrections() (hifive.hic.HiC method)
find_binning_fragment_corrections() (hifive.fivec.FiveC method)
find_cis_signal() (in module hifive.fivec_binning)
(in module hifive.hic_binning)
find_distance_parameters() (hifive.fivec.FiveC method)
(hifive.hic.HiC method)
find_express_fend_corrections() (hifive.hic.HiC method)
find_express_fragment_corrections() (hifive.fivec.FiveC method)
find_multiresolution_heatmap() (in module hifive.hic_binning)
find_probability_fend_corrections() (hifive.hic.HiC method)
find_probability_fragment_corrections() (hifive.fivec.FiveC method)
find_trans_mean() (hifive.fivec.FiveC method)
find_trans_means() (hifive.hic.HiC method)
find_trans_signal() (in module hifive.fivec_binning)
(in module hifive.hic_binning)
FiveC (class in hifive.fivec)
FiveCData (class in hifive.fivec_data)
Fragment (class in hifive.fragment)

H

HiC (class in hifive.hic)
HiCData (class in hifive.hic_data)
hifive.fend (module)
hifive.fivec (module)
hifive.fivec_binning (module)
hifive.fivec_data (module)
hifive.fragment (module)
hifive.hic (module)
hifive.hic_binning (module)
hifive.hic_data (module)
hifive.plotting (module)

L

learn_fend_3D_model() (hifive.hic.HiC method)
load() (hifive.fend.Fend method)
(hifive.fivec.FiveC method)
(hifive.fivec_data.FiveCData method)
(hifive.fragment.Fragment method)
(hifive.hic.HiC method)
(hifive.hic_data.HiCData method)
load_data() (hifive.fivec.FiveC method)
(hifive.hic.HiC method)
load_data_from_bam() (hifive.fivec_data.FiveCData method)
(hifive.hic_data.HiCData method)
load_data_from_counts() (hifive.fivec_data.FiveCData method)
load_data_from_mat() (hifive.hic_data.HiCData method)
load_data_from_raw() (hifive.hic_data.HiCData method)
load_fends() (hifive.fend.Fend method)
load_fragments() (hifive.fragment.Fragment method)

P

plot_compact_array() (in module hifive.plotting)
plot_diagonal_from_compact_array() (in module hifive.plotting)
plot_diagonal_from_upper_array() (in module hifive.plotting)
plot_fivec_compact_heatmap_dict() (in module hifive.plotting)
plot_fivec_heatmap() (in module hifive.plotting)
plot_full_array() (in module hifive.plotting)
plot_hic_heatmap() (in module hifive.plotting)
plot_key() (in module hifive.plotting)
plot_upper_array() (in module hifive.plotting)

R

reset_filter() (hifive.hic.HiC method)

S

save() (hifive.fend.Fend method)
(hifive.fivec.FiveC method)
(hifive.fivec_data.FiveCData method)
(hifive.fragment.Fragment method)
(hifive.hic.HiC method)
(hifive.hic_data.HiCData method)

T

trans_heatmap() (hifive.fivec.FiveC method)
(hifive.hic.HiC method)

W

write_heatmap() (hifive.fivec.FiveC method)
(hifive.hic.HiC method)
write_heatmap_dict() (in module hifive.fivec_binning)
(in module hifive.hic_binning)
write_multiresolution_heatmap() (hifive.hic.HiC method)