monarch-initiative oncoexporter issues

monarch-initiative / oncoexporter

A package to convert cancer data to GA4GH phenopacket

https://monarch-initiative.github.io/oncoexporter

MIT License

7 stars 1 forks source link

issues

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Add gene context while retrieving mutation data from GDC

#93 justaddcoffee closed 2 months ago
0
Fix scripts to use new CDA API

#92 justaddcoffee closed 3 months ago
0
Get stage directly from GDC, get data provenance

#91 msierk opened 5 months ago
0
Stage is all "Unknown" in Lung cohort

#90 justaddcoffee opened 6 months ago
1
Errors in GDC age_at_diagnosis

#89 msierk opened 6 months ago
0
Survival time calculation for subjects that are still "Alive"

#88 sujaypatil96 opened 7 months ago
0
Formula to calculate `survival_time_in_days` when patient is alive

#87 sujaypatil96 opened 7 months ago
3
Update cdapython dependency

#86 justaddcoffee closed 7 months ago
0
Pull in survival time and vital status metadata from GDC

#85 sujaypatil96 closed 7 months ago
1
Run time error

#84 msierk closed 7 months ago
4
Start using `GdcMutationService` and associated methods in `CdaTableImporter`

#83 sujaypatil96 closed 8 months ago
0
Validate survival variables

#82 ielis closed 7 months ago
9
Pull mutation data from GDC

#81 ielis closed 8 months ago
5
pull mutation data from GDC

#80 justaddcoffee closed 8 months ago
20
Expand CDA to NCIT Mappings for 12 tissues & Enhance OpUberonMapper

#79 rajdeepmondaldotcom closed 9 months ago
4
Improve UBERON mapping

#78 ielis opened 10 months ago
0
Compute `time_of_collection` in Biosample

#77 ielis opened 10 months ago
1
Finalize CI

#76 ielis closed 10 months ago
0
Commit mapping tsv files

#75 justaddcoffee closed 10 months ago
0
Add missing close paren

#74 justaddcoffee closed 10 months ago
0
Work on mutation ETL

#73 ielis closed 10 months ago
0
Unable to create VCF record for mutations with `-` in the allele strings

#72 ielis opened 10 months ago
0
fixing format errors

#71 pnrobinson closed 9 months ago
4
isoage

#70 pnrobinson closed 10 months ago
0
Work on individual factory and CDA importer

#69 ielis closed 10 months ago
1
Develop branch modifications

#68 msierk opened 10 months ago
0
adding cda mapping code

#67 pnrobinson closed 10 months ago
4
Resolve issues with `CdaDiseaseFactory` tests

#66 ielis closed 10 months ago
2
Fix mutation tests

#65 ielis closed 10 months ago
0
adding test file

#64 pnrobinson closed 10 months ago
0
Mutation tests fail due to a missing input file

#63 ielis closed 10 months ago
0
Getting continuous integration working in github actions

#62 justaddcoffee closed 10 months ago
2
Getting continuous integration working in github actions

#61 justaddcoffee closed 10 months ago
1
Change python requirement to >=3.8

#60 justaddcoffee closed 10 months ago
5
Minimum supported Python version

#59 ielis closed 10 months ago
1
Fix imports in modules

#58 ielis opened 10 months ago
0
Ontology

#57 pnrobinson closed 10 months ago
0
capture morphology

#56 justaddcoffee closed 10 months ago
2
Fix calls to to_ga4gh()

#55 justaddcoffee closed 11 months ago
0
NCIT Core vocabulary

#54 pnrobinson closed 10 months ago
2
Get stage info

#53 justaddcoffee closed 12 months ago
3
Develop

#52 pnrobinson closed 1 year ago
0
mutation

#51 pnrobinson closed 10 months ago
1
mkdocs issue

#50 pnrobinson closed 10 months ago
1
test_iso_age - fix calculate of ISO age

#49 pnrobinson closed 10 months ago
1
cda_medicalaction_factory

#48 pnrobinson opened 1 year ago
0
Develop

#47 pnrobinson closed 1 year ago
0
specimen: derived_from_subject

#46 pnrobinson closed 10 months ago
8
specimen: derived_from_specimen

#45 pnrobinson opened 1 year ago
1
specimen:source_material_type

#44 pnrobinson opened 1 year ago
1