Index

_

_abc_impl (anchorna.util.Anchor attribute) (anchorna.util.AnchorList attribute) _AnchorJSONEncoder (class in anchorna.io) _apply_mode() (anchorna.util.Fluke method) _calculate_fluke_scores() (anchorna.util.Anchor method) _cmd_combine() (in module anchorna.cli) _cmd_create() (in module anchorna.cli) _cmd_cutout() (in module anchorna.cli) _cmd_export() (in module anchorna.cli) _cmd_go() (in module anchorna.cli) _cmd_load() (in module anchorna.cli) _cmd_print() (in module anchorna.cli) _cmd_view() (in module anchorna.cli)

_configure_logging() (in module anchorna.cli) _convert_nt() (anchorna.util.Anchor method) (anchorna.util.AnchorList method) _json_hook() (in module anchorna.io) _make_rgb_transparent() (in module anchorna.io) _parse_selection() (in module anchorna.io) _read_anchors() (in module anchorna.io) _repr_pretty_() (anchorna.util.AnchorList method) _split_cutout_pos() (in module anchorna.core) _start_ipy() (in module anchorna.cli) _start_parallel_jobs() (in module anchorna.core) _transform_cutout_index() (in module anchorna.core) _tutorial_seqs() (in module anchorna.cli)

A

Anchor (class in anchorna.util) anchor_at_pos() (in module anchorna.core) AnchorList (class in anchorna.util) anchorna.cli module anchorna.core module

anchorna.io module anchorna.util module anchors2fts() (in module anchorna.util)

C

combine() (in module anchorna.core) contradicts() (anchorna.util.Anchor method) convert2fts() (anchorna.util.AnchorList method)

copy() (anchorna.util.AnchorList method) corrscore() (in module anchorna.util) cutout() (in module anchorna.core)

D

default() (anchorna.io._AnchorJSONEncoder method)

E

export_dialign() (in module anchorna.io) export_jalview() (in module anchorna.io)

export_locarna() (in module anchorna.io) export_stockholm() (in module anchorna.io)

F

find_anchors_winlen() (in module anchorna.core) find_my_anchors() (in module anchorna.core)

Fluke (class in anchorna.util) fts2anchors() (in module anchorna.util)

G

good_flukes (anchorna.util.Anchor property)

guide (anchorna.util.Anchor property)

I

id (anchorna.util.Anchor property)

J

join_with() (anchorna.util.Anchor method)

L

len (anchorna.util.Fluke property)

load_json() (in module anchorna.io)

M

maxes() (in module anchorna.core) maxscore (anchorna.util.Anchor property) medscore (anchorna.util.Anchor property) merge_overlapping_anchors() (anchorna.util.AnchorList method) minscore (anchorna.util.Anchor property)

module anchorna.cli anchorna.core anchorna.io anchorna.util

N

nicely_overlaps_with() (anchorna.util.Anchor method)

no_cds (anchorna.util.AnchorList property)

P

poor_flukes (anchorna.util.Anchor property)

R

read_anchors() (in module anchorna.io) remove_contradicting_anchors() (anchorna.util.AnchorList method)

run() (in module anchorna.cli) run_cmdline() (in module anchorna.cli)

S

seqids (anchorna.util.Anchor property) shift_and_find_best_word() (in module anchorna.core) sid (anchorna.util.Anchor property)

sort() (anchorna.util.Anchor method) (anchorna.util.AnchorList method) strand (anchorna.util.Anchor property) (anchorna.util.Fluke property)

T

todict_seqid() (anchorna.util.Anchor method)

tostr() (anchorna.util.Anchor method) (anchorna.util.AnchorList method)

W

write() (anchorna.util.AnchorList method)

write_anchors() (in module anchorna.io) write_json() (in module anchorna.io)