Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / elimuinformatics/vcf2fhir issues and pull requests
#112 - add vcf2fhir sample_position parameter
Issue -
State: open - Opened by rhdolin about 1 year ago
#111 - update sequence-phase-relationship-cs
Issue -
State: open - Opened by rhdolin about 1 year ago
#110 - Conversion not returning all variant entries
Issue -
State: closed - Opened by clake-deloitte over 1 year ago
- 4 comments
#109 - Getting Wheel error for command pip install vcf2fhir
Issue -
State: closed - Opened by pankajsurti over 1 year ago
- 3 comments
#108 - Question: how to scale up vcf2fhir
Issue -
State: closed - Opened by mad-scientist-in-training over 1 year ago
- 3 comments
#107 - vcf2fhir fails to install
Issue -
State: closed - Opened by mad-scientist-in-training over 1 year ago
- 2 comments
#106 - Bump fhirclient from 3.2.0 to 4.1.0
Pull Request -
State: open - Opened by dependabot[bot] about 2 years ago
Labels: dependencies
#105 - Update vcf files to include DP Format Header
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#104 - Update changelog and setup file for 0.1.1
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#103 - Switch from PyVCF to PyVCF3 and update workflow to install dependencies from requirements.txt
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#102 - Installation succeeds; "import vcf2fhir" fails
Issue -
State: closed - Opened by bwalsh over 2 years ago
- 2 comments
#101 - Revert "Updates Manual to show genomic-source-class as a required parameter"
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#100 - Revert "Updates Manual to show genomic-source-class as a required par…
Pull Request -
State: closed - Opened by rhdolin over 2 years ago
- 1 comment
#99 - Updates Manual to show genomic-source-class as a required parameter
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#98 - variant inner end error fix and code-system update
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#97 - Updates Code to handle multi-valued alts and remove default value for Genomic Source Class
Pull Request -
State: closed - Opened by Rohan-cod over 2 years ago
#96 - Incorrect output when ALT is a multi-valued list
Issue -
State: closed - Opened by rhdolin over 2 years ago
#95 - Create and add Project logo
Issue -
State: open - Opened by srgothi92 almost 3 years ago
#94 - Add badges in Readme for higher visibility of project
Issue -
State: open - Opened by srgothi92 almost 3 years ago
#93 - Updates changelog and setup file for v0.1.0
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#92 - Adds documentation for Structural Variants and Clinical Annotations
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#91 - Minor enhancements to exclusion criteria and adds integration tests for Structural Variants
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#90 - genetic variant assessment should be 'absent' when GT=0/0
Issue -
State: closed - Opened by Yun-00 about 3 years ago
- 3 comments
#89 - Adds support for clinical annotations
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#88 - Add Support for clinical annotations
Issue -
State: closed - Opened by Rohan-cod about 3 years ago
#87 - Fixed documentation issue
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#86 - Adds support for the conversion of Structural Variants
Pull Request -
State: closed - Opened by Rohan-cod about 3 years ago
#85 - Added dependabot.yml configuration file
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 1 comment
#84 - Setup Dependabot for dependency updates
Issue -
State: closed - Opened by srgothi92 over 3 years ago
#83 - Deploy vcf2fhir on the bioconda channel
Issue -
State: open - Opened by Rohan-cod over 3 years ago
#82 - Update Changelog for v0.0.1-v0.0.16
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#81 - Updated logic for simple variant extraction
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#80 - Switch to PEP 517 build
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 7 comments
#79 - Fixed base conversion for Conversion Region Disctionary
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 2 comments
#78 - Updated installation guide with steps for windows
Pull Request -
State: open - Opened by Rohan-cod over 3 years ago
#77 - Fixed FHIR Validation errors and warnings
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 2 comments
#76 - Updated the location of pull request template
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#75 - Update CHANGELOG for v0.0.17
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#74 - Extract simple variants based on conversion region
Issue -
State: closed - Opened by rhdolin over 3 years ago
- 1 comment
#73 - conversion between 0-based and 1-based coordinate systems
Issue -
State: closed - Opened by rhdolin over 3 years ago
#72 - Update setup.py for v0.0.17
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#71 - Update CHANGELOG for v0.0.16
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 6 comments
#70 - Support vcf2fhir on windows !
Issue -
State: open - Opened by srgothi92 over 3 years ago
#69 - Fixed case where conversion region is not studied
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 3 comments
#68 - Update Manual.md
Pull Request -
State: closed - Opened by rhdolin over 3 years ago
- 1 comment
#67 - Moved pull_request_template from docs to .github
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#66 - Error when conversion region wasn't studied
Issue -
State: closed - Opened by rhdolin over 3 years ago
- 1 comment
#65 - Add files via upload
Pull Request -
State: closed - Opened by rhdolin over 3 years ago
#64 - Add files via upload
Pull Request -
State: closed - Opened by rhdolin over 3 years ago
#63 - Add genomic source class to variant observations
Issue -
State: closed - Opened by rhdolin over 3 years ago
- 4 comments
Labels: defer
#62 - Resource Warning due to the PyVCF3 library
Issue -
State: open - Opened by Rohan-cod over 3 years ago
- 1 comment
#61 - Adding minimum support version check for pyranges
Pull Request -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 2 comments
#60 - GitHub Action to build and publish Python package to PyPI
Issue -
State: closed - Opened by Rohan-cod over 3 years ago
- 3 comments
#59 - Refactored unit tests and integration tests
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 2 comments
#58 - To resolve Resource Warning : unclosed file
Issue -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 32 comments
#57 - Added a decorator to ignore 'Resource Warnings'
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 6 comments
#56 - Update documentation
Pull Request -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 3 comments
#55 - Simplifying the code
Pull Request -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 34 comments
#54 - Replaced np.float with float in 'fhir_helper.py'
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#53 - Issue #36: Remove 'Human reference sequence assembly version' compone…
Pull Request -
State: closed - Opened by theanmolsharma over 3 years ago
#52 - Simplifying the code
Issue -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 9 comments
#51 - Refactored 'test_integration.py' to use 'with open() as file' syntax
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 2 comments
#50 - Refactored GitHub Actions to add PEP 8 formatting validation
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#49 - Update Documentation
Issue -
State: closed - Opened by srgothi92 over 3 years ago
- 5 comments
#48 - Refactored 'Common.py' to remove utility class and create utility functions
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#47 - Refactored python code so that it conforms to PEP8
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
#46 - Issue #36: Remove 'Human reference sequence assembly version' component from variant observation
Pull Request -
State: closed - Opened by theanmolsharma over 3 years ago
- 14 comments
#45 - Revert "GitHub Action to validate PEP 8 formatting against any new PR…
Pull Request -
State: closed - Opened by rhdolin over 3 years ago
#44 - Updated CONTRIBUTING.md
Pull Request -
State: closed - Opened by srgothi92 over 3 years ago
- 1 comment
#43 - GitHub Community Checklist
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 1 comment
#42 - GitHub Action to validate PEP 8 formatting against any new PR that is raised
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 3 comments
#41 - Meet the GitHub community checklist for public repository
Issue -
State: closed - Opened by srgothi92 over 3 years ago
- 5 comments
#40 - Refactored tests to separate Unit tests and Integration tests
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 1 comment
#39 - Refactored python code so that it conforms to PEP8
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 12 comments
#38 - Setup Github Actions to run tests against any new PR that is raised
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 3 comments
#37 - Add support for multi-sample VCFs
Issue -
State: closed - Opened by rhdolin over 3 years ago
- 5 comments
#36 - Remove 'Human reference sequence assembly version' component from variant observation
Issue -
State: closed - Opened by rhdolin over 3 years ago
- 5 comments
Labels: good first issue
#35 - Refactor Idiomatic python
Issue -
State: closed - Opened by srgothi92 over 3 years ago
#34 - Release a new version 0.0.17 with proper Changelog updates
Issue -
State: closed - Opened by srgothi92 over 3 years ago
- 1 comment
#33 - Refactor tests to separate Unit tests and Integration Tests and add more Unit tests
Issue -
State: closed - Opened by srgothi92 over 3 years ago
- 1 comment
#32 - Setup Continuos Integration (CI)
Issue -
State: closed - Opened by srgothi92 over 3 years ago
#31 - Data Type Validation for 'has_tabix' and 'ratio_ad_dp'
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 2 comments
#30 - Data Type validation for 'has_tabix' and 'ratio_ad_dp'.
Issue -
State: closed - Opened by Rohan-cod over 3 years ago
#29 - mitochondrial DNA homoplasmic vs. heteroplasmic assignment #16
Pull Request -
State: closed - Opened by abhishek-jain-1999 over 3 years ago
- 1 comment
#28 - Added exclusion criteria, for cases where VCF CHROM is not recognized.
Pull Request -
State: closed - Opened by Rohan-cod over 3 years ago
- 3 comments
#27 - Fixed some minor issues
Pull Request -
State: closed - Opened by srgothi92 almost 4 years ago
#26 - Should not exclude records where FILTER=PASS
Issue -
State: closed - Opened by rhdolin almost 4 years ago
#25 - Fatal error if FORMAT.PS is missing
Issue -
State: closed - Opened by rhdolin almost 4 years ago
#22 - added changes by manual to docs
Pull Request -
State: closed - Opened by LondheShubham153 almost 4 years ago
#20 - Conversion method should return the converted data, and rely on another method to write data onto a file
Issue -
State: open - Opened by rhdolin almost 4 years ago
- 3 comments
Labels: defer
#19 - Graceful handling of unknown chromosome
Issue -
State: closed - Opened by rhdolin almost 4 years ago
#18 - Shift the build process to PEP-517
Issue -
State: closed - Opened by rhdolin almost 4 years ago
- 7 comments
#16 - mitochondrial DNA homoplasmic vs. heteroplasmic assignment
Issue -
State: closed - Opened by rhdolin almost 4 years ago
#14 - Conform to HL7 find-subject-variants output
Issue -
State: closed - Opened by rhdolin almost 4 years ago
- 4 comments
Labels: defer
#13 - query liftover
Issue -
State: closed - Opened by rhdolin almost 4 years ago
- 2 comments
#12 - Searching for variants in Alt contigs
Issue -
State: open - Opened by rhdolin almost 4 years ago
- 2 comments
Labels: defer
#11 - vcf2fhir for structural variants
Issue -
State: closed - Opened by rhdolin almost 4 years ago
#10 - added ReadTheDocs to README.md
Pull Request -
State: closed - Opened by LondheShubham153 almost 4 years ago
#8 - Read the docs changes
Pull Request -
State: closed - Opened by LondheShubham153 almost 4 years ago
#5 - Remove design doc files
Pull Request -
State: closed - Opened by LondheShubham153 about 4 years ago