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phenotype2phenopacket
Phenotype2Phenopacket is a command-line tool that converts a phenotype annotation into GA4GH Phenopackets, facilitating standardised phenotypic data representation.
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Add error handling for empty matches for a disease
#44
yaseminbridges
closed
5 days ago
0
Error handling for when no phenotype entries are found in the annotation for a disease
#43
yaseminbridges
closed
5 days ago
0
41 allow for specification of gene identifier to use in phenopacket
#42
yaseminbridges
closed
2 weeks ago
0
Allow for specification of gene identifier to use in phenopacket
#41
yaseminbridges
closed
2 weeks ago
0
39 typeerror in add genes unexpected keyword argument omim disease phenotype gene map
#40
yaseminbridges
closed
2 weeks ago
0
TypeError in add_genes: Unexpected keyword argument 'omim_disease_phenotype_gene_map'
#39
yaseminbridges
closed
2 weeks ago
0
37 typeerror in read genes to disease read csv received unexpected keyword argument sep
#38
yaseminbridges
closed
2 weeks ago
0
TypeError in read_genes_to_disease: read_csv() Received Unexpected Keyword Argument 'sep'
#37
yaseminbridges
closed
2 weeks ago
0
35 missing pt id argument in create phenopacket function call
#36
yaseminbridges
closed
2 weeks ago
0
Missing pt_id Argument in create_phenopacket Function Call
#35
yaseminbridges
closed
2 weeks ago
0
33 use genes to disease from hpo in place of disease pg
#34
yaseminbridges
closed
3 weeks ago
0
Use genes_to_disease from hpo in place of disease pg
#33
yaseminbridges
closed
3 weeks ago
2
31 allow specification of local ontology file
#32
yaseminbridges
closed
3 weeks ago
0
Allow specification of local ontology file
#31
yaseminbridges
closed
3 weeks ago
0
29 remove dependency on ontobio
#30
yaseminbridges
closed
6 months ago
0
Remove dependency on ontobio
#29
yaseminbridges
closed
6 months ago
0
Update polars 0.17 -> 0.19
#28
justaddcoffee
closed
8 months ago
1
Pass pt id to create synthetic patient phenopacket
#27
justaddcoffee
closed
9 months ago
2
Add optional pt_id arg when making phenopackets
#26
justaddcoffee
closed
9 months ago
1
Remove dependency on SIGALARM
#25
yaseminbridges
closed
10 months ago
0
SIGALRM doesn't work on Windows
#24
justaddcoffee
closed
10 months ago
5
Check for no parent in get_parents_of_terms()
#23
justaddcoffee
closed
10 months ago
1
21 add specification of a specific omim disease or list of omim diseases for creation of phenopackets
#22
yaseminbridges
closed
11 months ago
0
Add specification of a specific OMIM disease or list of OMIM diseases for creation of phenopackets
#21
yaseminbridges
closed
11 months ago
0
18 use pheval as a dependency
#20
yaseminbridges
closed
11 months ago
0
merge main into branch
#19
yaseminbridges
closed
11 months ago
0
Use PhEval as a dependency
#18
yaseminbridges
closed
11 months ago
0
updating docstrings to Google docstring format
#17
yaseminbridges
closed
11 months ago
0
Update Docstrings
#16
yaseminbridges
closed
11 months ago
0
14 take version from hpo annotation for phenopacket metadata
#15
yaseminbridges
closed
11 months ago
0
Take version from hpo annotation for phenopacket metadata
#14
yaseminbridges
closed
11 months ago
0
Use polars API to add random frequencies in `add_frequency()`
#13
justaddcoffee
closed
11 months ago
2
add handling of obligate terms
#12
yaseminbridges
closed
1 year ago
0
prevent conversion to HP:0032443
#11
yaseminbridges
closed
1 year ago
0
Changed float onsets to integer
#10
yaseminbridges
closed
1 year ago
0
Fixing lag when filtering phenotype terms
#9
yaseminbridges
closed
1 year ago
0
Alter naming of disease phenopackets
#8
yaseminbridges
closed
1 year ago
0
Prevent terms converted to HP:0032443
#7
yaseminbridges
closed
1 year ago
0
Add handling of obligate terms
#6
yaseminbridges
closed
1 year ago
0
Alter non-integer onsets
#5
yaseminbridges
closed
1 year ago
0
fix lag time when filtering patient phenotypes depending on frequency
#4
yaseminbridges
closed
1 year ago
0
fix naming of phenopackets
#3
yaseminbridges
closed
1 year ago
0
Fix error with 0 terms selected for patient terms
#2
yaseminbridges
closed
1 year ago
0
Errors and warnings
#1
julesjacobsen
closed
1 year ago
1