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GitHub / OpenOmics / genome-seek
Clinical Whole Genome and Exome Sequencing Pipeline
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/OpenOmics%2Fgenome-seek
Stars: 16
Forks: 7
Open Issues: 3
License: mit
Language: Python
Repo Size: 919 KB
Dependencies:
43
Created: about 2 years ago
Updated: 2 days ago
Last pushed: 2 days ago
Last synced: 2 days ago
Topics: copy-number-variation, germline-variants, hla-typing, pipeline, quality-control, singularity, snakemake, somatic-variants, structural-variants, variant-annotation, variant-effect-prediction, whole-exome-sequencing, whole-genome-sequencing
Files
Dependencies
- actions/checkout v2 composite
- actions/setup-python v2 composite
- actions/checkout v2 composite
- docker://snakemake/snakemake v5.24.2 composite
- ubuntu 20.04 build
- ubuntu 22.04 build
- python 3.8 build
- ubuntu 22.04 build
- ensemblorg/ensembl-vep release_106.0 build
- Babel ==2.8.0
- GitPython ==3.1.7
- Jinja2 ==2.11.2
- Markdown ==3.2.2
- MarkupSafe ==1.1.1
- PyYAML ==5.3.1
- Pygments ==2.6.1
- click ==7.1.2
- future ==0.18.2
- gitdb ==4.0.5
- htmlmin ==0.1.12
- importlib-metadata ==1.7.0
- joblib ==0.16.0
- jsmin ==3.0.0
- livereload ==2.6.1
- lunr ==0.5.8
- mike *
- mkdocs *
- mkdocs-awesome-pages-plugin ==2.2.1
- mkdocs-git-revision-date-localized-plugin ==0.7
- mkdocs-git-revision-date-plugin *
- mkdocs-material *
- mkdocs-material-extensions *
- mkdocs-minify-plugin ==0.3.0
- mkdocs-redirects ==1.0.1
- nltk ==3.5
- pymdown-extensions ==7.1
- pytz ==2020.1
- regex ==2020.7.14
- six ==1.15.0
- smmap ==3.0.4
- tornado ==6.0.4
- tqdm ==4.48.2
- zipp ==3.1.0