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Clinical-Genomics
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genmod
Annotate models of genetic inheritance patterns in variant files (vcf files)
http://moonso.github.io/genmod/
MIT License
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Unstable compounds order in output from genmod models
#133
fellen31
opened
5 days ago
0
Model discrepancy when chrX has chr prefix (GRCh38)
#132
fellen31
opened
2 weeks ago
0
Malformed INFO lines
#131
fellen31
closed
2 weeks ago
1
Scoring an empty VCF
#130
fellen31
opened
1 month ago
0
Create VCF_DRSahajal
#129
DrParulGupta
opened
5 months ago
1
Silently missing values when using integer format in rank model and encountering a float value
#128
Jakob37
opened
5 months ago
2
"Error: No such option: -f" message when running example
#127
hrydbeck
opened
6 months ago
0
Phased models bugged?
#126
dnil
opened
8 months ago
0
Unfreeze python version, fix collections import
#125
dnil
opened
8 months ago
0
Makefile target for pypi dist upload
#124
torbjorgen
opened
9 months ago
0
setup.py: Set version 3.8.2
#123
torbjorgen
closed
9 months ago
0
Export Rankscore as Float Type
#122
torbjorgen
closed
9 months ago
1
Mixed int-float in RankScore
#121
torbjorgen
closed
9 months ago
0
setup.py: Lockdown genmod, limit compatibility to python v3.8
#120
torbjorgen
closed
9 months ago
0
python3.10: import error
#119
jemten
closed
9 months ago
1
setup.py: Set version 3.8.1
#118
torbjorgen
closed
10 months ago
0
setup py uplift requirements
#117
torbjorgen
closed
10 months ago
2
TypeError: annotate() got an unexpected keyword argument 'regions'
#116
manburst
closed
9 months ago
2
container broken for version 3.8
#115
jemten
closed
10 months ago
2
CHANGELOG, setup.py changes for v3.8.0
#114
torbjorgen
closed
11 months ago
1
Tag, build new release
#113
torbjorgen
closed
11 months ago
0
Link to documentation broken
#112
Jakob37
opened
11 months ago
1
set abstract_sockets_supported to False
#111
ramprasadn
closed
1 year ago
1
Compound scoring: Cap rankscore values to (min, ) range
#110
torbjorgen
closed
1 year ago
1
requirements: Set fixed version for deps
#109
torbjorgen
closed
1 year ago
1
Rankscore normalization
#108
torbjorgen
closed
11 months ago
11
Change or document AR_compound low scoring compound penalty
#107
dnil
opened
1 year ago
1
Allow "Source" and "Version" in INFO header
#106
maehler
opened
2 years ago
0
Error occurs if one or more variants in vep annotated VCF lacks VEP annotation when running with --vep
#105
bartcharbon
opened
3 years ago
1
Use poetry as build tool
#104
moonso
opened
3 years ago
0
Update docs on cli options
#103
moonso
closed
3 years ago
0
parse new header format
#102
moonso
closed
3 years ago
0
bug in parsing VCF header with filters that use escape character
#101
hassanfa
closed
3 years ago
9
Documentation for "strict" and "phased" seems to be broken
#100
bartcharbon
closed
3 years ago
1
Compound is missed if one parent is genotyped for each variant
#99
bartcharbon
opened
3 years ago
4
Genmod models '--vep' option throws exception
#98
bartcharbon
closed
3 years ago
6
Incorrect "Compounds" INFO field in case of multiallelic records
#97
bartcharbon
closed
3 years ago
2
ANN standard format
#96
dridk
opened
4 years ago
0
Implement a tier based ranking for somatic mutations
#95
hassanfa
opened
4 years ago
2
no genetic model annotation
#94
caozongfu
closed
4 years ago
0
Some variants without GeneticModels annotation
#93
geocarvalho
closed
4 years ago
1
String matching in clinvar records..
#92
dnil
opened
4 years ago
0
GenMod error: 'list' object has no attribute 'split'
#91
fgvieira
closed
5 years ago
1
Incompatible CLI with click 7.0
#90
henrikstranneheim
closed
5 years ago
0
Automatically determine pedigree?
#89
santiagorevale
closed
5 years ago
1
No "GeneticModels=" in the output
#88
jielab
closed
6 years ago
2
genmod score, data_type=string appears to match when the rule is a substring of the string in the VCF
#87
bjhall
opened
6 years ago
0
"record_rule = max" appears to prioritize based on max(value) rather than max(score)
#86
bjhall
opened
6 years ago
1
CSQ field is not parsed properly in genmod score when using --skip_plugin_check
#85
hassanfa
opened
6 years ago
0
Food for thought: rank STR expansion variants?
#84
dnil
closed
2 years ago
1
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