├── LICENSE ├── README.md └── notebooks ├── Day2-Germline ├── 1-gatk-germline-variant-discovery-tutorial.ipynb ├── 2-gatk-hard-filtering-tutorial-python.ipynb ├── 3-gatk-hard-filtering-tutorial-r-plotting.ipynb └── 4-gatk-cnn-tutorial-python.ipynb └── Day3-Somatic ├── 1-somatic-mutect2-tutorial.ipynb └── 2-somatic-cna-tutorial.ipynb /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/README.md -------------------------------------------------------------------------------- /notebooks/Day2-Germline/1-gatk-germline-variant-discovery-tutorial.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day2-Germline/1-gatk-germline-variant-discovery-tutorial.ipynb -------------------------------------------------------------------------------- /notebooks/Day2-Germline/2-gatk-hard-filtering-tutorial-python.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day2-Germline/2-gatk-hard-filtering-tutorial-python.ipynb -------------------------------------------------------------------------------- /notebooks/Day2-Germline/3-gatk-hard-filtering-tutorial-r-plotting.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day2-Germline/3-gatk-hard-filtering-tutorial-r-plotting.ipynb -------------------------------------------------------------------------------- /notebooks/Day2-Germline/4-gatk-cnn-tutorial-python.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day2-Germline/4-gatk-cnn-tutorial-python.ipynb -------------------------------------------------------------------------------- /notebooks/Day3-Somatic/1-somatic-mutect2-tutorial.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day3-Somatic/1-somatic-mutect2-tutorial.ipynb -------------------------------------------------------------------------------- /notebooks/Day3-Somatic/2-somatic-cna-tutorial.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gatk-workflows/gatk4-jupyter-notebook-tutorials/HEAD/notebooks/Day3-Somatic/2-somatic-cna-tutorial.ipynb --------------------------------------------------------------------------------