Index

_

__getattr__() (guido.Guide method) (guido.guides.Guide method) __repr__() (guido.Guide method) (guido.guides.Guide method) (guido.Locus method) (guido.locus.Locus method) _apply_clipped_layer_data() (guido.Locus method) (guido.locus.Locus method) _apply_variation_layer_data() (guido.Locus method) (guido.locus.Locus method) _create_mmej_oof_string() (guido.Guide method) (guido.guides.Guide method) _find_guides_in_interval() (guido.Locus method) (guido.locus.Locus method) _flatten_intervals() (guido.Locus method) (guido.locus.Locus method) _get_guide_regions() (guido.Locus method) (guido.locus.Locus method)

_guide_alt_ac() (guido.Locus method) (guido.locus.Locus method) _guide_instance_to_dict() (in module guido.helpers) _guide_layers() (guido.Locus method) (guido.locus.Locus method) _guide_n_variants() (guido.Locus method) (guido.locus.Locus method) _guide_sequence_diversity() (guido.Locus method) (guido.locus.Locus method) _guides_detailed_table() (in module guido.helpers) _guides_to_bed() (in module guido.helpers) _guides_to_csv() (in module guido.helpers) _guides_to_dataframe() (in module guido.helpers) _hit_is_valid() (in module guido.off_targets) _parse_mismatches() (in module guido.off_targets) _prepare_alt_matrix() (guido.Locus method) (guido.locus.Locus method) _prepare_annotation() (in module guido.locus)

A

add_azimuth_score() (guido.Guide method) (guido.guides.Guide method) (guido.Locus method) (guido.locus.Locus method)

add_layer() (guido.Guide method) (guido.guides.Guide method) (guido.Locus method) (guido.locus.Locus method)

B

build() (guido.Genome method) (guido.genome.Genome method)

C

calculate_cfd_score() (in module guido.off_targets)

calculate_ot_sum_score() (in module guido.off_targets) check_file() (in module guido.genome)

E

EXCLUDED_ATTRS (in module guido.helpers)

F

find_guides() (guido.Locus method) (guido.locus.Locus method) find_off_targets() (guido.Guide method) (guido.guides.Guide method) (guido.Locus method) (guido.locus.Locus method)

G

generate_mmej_patterns() (in module guido.mmej) Genome (class in guido) (class in guido.genome) get_off_targets_string() (in module guido.off_targets) Guide (class in guido) (class in guido.guides) guide() (guido.Locus method) (guido.locus.Locus method) guides_detailed_table() (guido.Locus method) (guido.locus.Locus method) guides_to_bed() (guido.Locus method) (guido.locus.Locus method) guides_to_csv() (guido.Locus method) (guido.locus.Locus method) guides_to_dataframe() (guido.Locus method) (guido.locus.Locus method)

guido module guido.genome module guido.guides module guido.helpers module guido.locus module guido.mmej module guido.off_targets module

I

is_built (guido.Genome property) (guido.genome.Genome property)

is_tool() (in module guido) (in module guido.helpers)

L

layer() (guido.Guide method) (guido.guides.Guide method) layers (guido.Guide property) (guido.guides.Guide property) (guido.Locus property) (guido.locus.Locus property) load_cfd_scoring_matrix() (in module guido.helpers) load_genome_from_file() (in module guido) (in module guido.genome)

location (guido.Guide property) (guido.guides.Guide property) Locus (class in guido) (class in guido.locus) locus_from_coordinates() (in module guido) (in module guido.locus) locus_from_gene() (in module guido) (in module guido.locus) locus_from_sequence() (in module guido) (in module guido.locus)

M

module guido guido.genome guido.guides guido.helpers guido.locus guido.mmej guido.off_targets

O

off_targets_string (guido.Guide property) (guido.guides.Guide property)

R

rank_guides() (guido.Locus method) (guido.locus.Locus method)

rev_comp() (in module guido) (in module guido.helpers) run_bowtie() (in module guido.off_targets)

S

sequence (guido.Genome property) (guido.genome.Genome property) simulate_end_joining() (guido.Guide method) (guido.guides.Guide method) (guido.Locus method) (guido.locus.Locus method)

T

to_dict() (guido.Locus method) (guido.locus.Locus method)