HGVS
1.4.0
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
A
aa (hgvs.location.AAPosition attribute)
AAExt (class in hgvs.edit)
AAFs (class in hgvs.edit)
AAPosition (class in hgvs.location)
AARefAlt (class in hgvs.edit)
AASub (class in hgvs.edit)
aaterm (hgvs.edit.AAExt attribute)
ac (hgvs.hgvsposition.HGVSPosition attribute)
(hgvs.sequencevariant.SequenceVariant attribute)
AlignmentMapper (class in hgvs.alignmentmapper)
alt (hgvs.edit.AAExt attribute)
(hgvs.edit.AAFs attribute)
(hgvs.edit.AARefAlt attribute)
(hgvs.edit.NARefAlt attribute)
alt_ac (hgvs.alignmentmapper.AlignmentMapper attribute)
alt_aln_method (hgvs.alignmentmapper.AlignmentMapper attribute)
AssemblyMapper (class in hgvs.assemblymapper)
B
base (hgvs.location.AAPosition attribute)
(hgvs.location.BaseOffsetPosition attribute)
(hgvs.location.SimplePosition attribute)
BaseOffsetInterval (class in hgvs.location)
BaseOffsetPosition (class in hgvs.location)
C
c_to_g() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
c_to_n() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
c_to_p() (hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
cds_end_i (hgvs.alignmentmapper.AlignmentMapper attribute)
cds_start_i (hgvs.alignmentmapper.AlignmentMapper attribute)
check_datum() (hgvs.location.BaseOffsetInterval method)
cigar (hgvs.alignmentmapper.AlignmentMapper attribute)
cigar_op (hgvs.alignmentmapper.AlignmentMapper attribute)
close() (hgvs.dataproviders.uta.UTA_postgresql method)
Config (class in hgvs.config)
ConfigGroup (class in hgvs.config)
connect() (in module hgvs.dataproviders.uta)
Conv (class in hgvs.edit)
copy (hgvs.edit.NACopy attribute)
D
data_version() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
database (hgvs.dataproviders.uta.ParseResult attribute)
datum (hgvs.location.BaseOffsetPosition attribute)
Dup (class in hgvs.edit)
E
Edit (class in hgvs.edit)
edit (hgvs.posedit.PosEdit attribute)
end (hgvs.location.Interval attribute)
ExtrinsicValidator (class in hgvs.validator)
F
fill_ref() (hgvs.sequencevariant.SequenceVariant method)
format() (hgvs.edit.AAExt method)
(hgvs.edit.AAFs method)
(hgvs.edit.AARefAlt method)
(hgvs.edit.AASub method)
(hgvs.edit.Dup method)
(hgvs.edit.Edit method)
(hgvs.edit.NARefAlt method)
(hgvs.edit.Repeat method)
(hgvs.location.AAPosition method)
(hgvs.location.BaseOffsetPosition method)
(hgvs.location.Interval method)
(hgvs.location.SimplePosition method)
(hgvs.posedit.PosEdit method)
(hgvs.sequencevariant.SequenceVariant method)
from_ac (hgvs.edit.Conv attribute)
from_pos (hgvs.edit.Conv attribute)
from_type (hgvs.edit.Conv attribute)
G
g_to_c() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
g_to_n() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
g_to_t() (hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
gc_offset (hgvs.alignmentmapper.AlignmentMapper attribute)
gene (hgvs.hgvsposition.HGVSPosition attribute)
(hgvs.sequencevariant.SequenceVariant attribute)
get_acs_for_protein_seq() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_assembly_map() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_gene_info() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_pro_ac_for_tx_ac() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_seq() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_similar_transcripts() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_exons() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_for_gene() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_for_region() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_identity_info() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_info() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
get_tx_mapping_options() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
H
hgvs (module)
hgvs.alignmentmapper (module)
hgvs.assemblymapper (module)
hgvs.config (module)
hgvs.config.global_config (in module hgvs.config)
hgvs.dataproviders.interface (module)
hgvs.dataproviders.uta (module)
hgvs.easy (module)
hgvs.edit (module)
hgvs.hgvsposition (module)
hgvs.location (module)
hgvs.normalizer (module)
hgvs.parser (module)
hgvs.posedit (module)
hgvs.projector (module)
hgvs.sequencevariant (module)
hgvs.validator (module)
hgvs.variantmapper (module)
HGVSPosition (class in hgvs.hgvsposition)
I
init_met (hgvs.edit.AARefAlt attribute)
Interface (class in hgvs.dataproviders.interface)
interface_version() (hgvs.dataproviders.interface.Interface method)
Interval (class in hgvs.location)
IntrinsicValidator (class in hgvs.validator)
Inv (class in hgvs.edit)
is_coding_transcript (hgvs.alignmentmapper.AlignmentMapper attribute)
is_intronic (hgvs.location.BaseOffsetPosition attribute)
is_uncertain (hgvs.location.AAPosition attribute)
(hgvs.location.BaseOffsetPosition attribute)
(hgvs.location.Interval attribute)
(hgvs.location.SimplePosition attribute)
L
length (hgvs.edit.AAExt attribute)
(hgvs.edit.AAFs attribute)
length_change() (hgvs.posedit.PosEdit method)
M
max (hgvs.edit.Repeat attribute)
min (hgvs.edit.Repeat attribute)
N
n_to_c() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
n_to_g() (hgvs.alignmentmapper.AlignmentMapper method)
(hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
NACopy (class in hgvs.edit)
NARefAlt (class in hgvs.edit)
normalize() (hgvs.normalizer.Normalizer method)
Normalizer (class in hgvs.normalizer)
O
offset (hgvs.location.BaseOffsetPosition attribute)
P
parse() (hgvs.parser.Parser method)
Parser (class in hgvs.parser)
ParseResult (class in hgvs.dataproviders.uta)
pos (hgvs.hgvsposition.HGVSPosition attribute)
(hgvs.location.AAPosition attribute)
(hgvs.posedit.PosEdit attribute)
PosEdit (class in hgvs.posedit)
posedit (hgvs.sequencevariant.SequenceVariant attribute)
project_interval_backward() (hgvs.projector.Projector method)
project_interval_forward() (hgvs.projector.Projector method)
project_variant_backward() (hgvs.projector.Projector method)
project_variant_forward() (hgvs.projector.Projector method)
Projector (class in hgvs.projector)
R
read_stream() (hgvs.config.Config method)
ref (hgvs.edit.AAExt attribute)
(hgvs.edit.AAFs attribute)
(hgvs.edit.AARefAlt attribute)
(hgvs.edit.Dup attribute)
(hgvs.edit.Inv attribute)
(hgvs.edit.NARefAlt attribute)
(hgvs.edit.Repeat attribute)
ref_n (hgvs.edit.Inv attribute)
(hgvs.edit.NARefAlt attribute)
ref_pos (hgvs.alignmentmapper.AlignmentMapper attribute)
ref_s (hgvs.edit.Dup attribute)
(hgvs.edit.Inv attribute)
(hgvs.edit.NARefAlt attribute)
relevant_transcripts() (hgvs.assemblymapper.AssemblyMapper method)
Repeat (class in hgvs.edit)
required_version (hgvs.dataproviders.interface.Interface attribute)
(hgvs.dataproviders.uta.UTABase attribute)
S
schema (hgvs.dataproviders.uta.ParseResult attribute)
schema_version() (hgvs.dataproviders.interface.Interface method)
(hgvs.dataproviders.uta.UTABase method)
SequenceVariant (class in hgvs.sequencevariant)
SimplePosition (class in hgvs.location)
start (hgvs.location.Interval attribute)
strand (hgvs.alignmentmapper.AlignmentMapper attribute)
T
t_to_g() (hgvs.assemblymapper.AssemblyMapper method)
(hgvs.variantmapper.VariantMapper method)
t_to_p() (hgvs.assemblymapper.AssemblyMapper method)
tgt_len (hgvs.alignmentmapper.AlignmentMapper attribute)
tgt_pos (hgvs.alignmentmapper.AlignmentMapper attribute)
tx_ac (hgvs.alignmentmapper.AlignmentMapper attribute)
type (hgvs.edit.AAExt attribute)
(hgvs.edit.AAFs attribute)
(hgvs.edit.AARefAlt attribute)
(hgvs.edit.AASub attribute)
(hgvs.edit.Conv attribute)
(hgvs.edit.Dup attribute)
(hgvs.edit.Inv attribute)
(hgvs.edit.NACopy attribute)
(hgvs.edit.NARefAlt attribute)
(hgvs.edit.Repeat attribute)
(hgvs.hgvsposition.HGVSPosition attribute)
(hgvs.sequencevariant.SequenceVariant attribute)
U
uncertain (hgvs.edit.AAExt attribute)
(hgvs.edit.AAFs attribute)
(hgvs.edit.AARefAlt attribute)
(hgvs.edit.Conv attribute)
(hgvs.edit.Dup attribute)
(hgvs.edit.Inv attribute)
(hgvs.edit.NACopy attribute)
(hgvs.edit.NARefAlt attribute)
(hgvs.edit.Repeat attribute)
(hgvs.location.AAPosition attribute)
(hgvs.location.BaseOffsetPosition attribute)
(hgvs.location.Interval attribute)
(hgvs.location.SimplePosition attribute)
(hgvs.posedit.PosEdit attribute)
UTA_postgresql (class in hgvs.dataproviders.uta)
UTABase (class in hgvs.dataproviders.uta)
V
validate() (hgvs.location.AAPosition method)
(hgvs.location.BaseOffsetPosition method)
(hgvs.location.Interval method)
(hgvs.location.SimplePosition method)
(hgvs.posedit.PosEdit method)
(hgvs.sequencevariant.SequenceVariant method)
(hgvs.validator.ExtrinsicValidator method)
(hgvs.validator.IntrinsicValidator method)
(hgvs.validator.Validator method)
Validator (class in hgvs.validator)
VariantMapper (class in hgvs.variantmapper)
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