josephrich98/custom_base_image repository overview

Subtag legend

• rver
  • rver_tidyverse: r-ver + tidyverse, remotes, biocmanager, rmarkdown, system packages for devtools, and system python 3.10 (only as a dependency for other packages - use rver_systempython if I plan to really use system python)
  • rver_conda: rver + tidyverse + miniconda
  • rver_systempython: rver + tidyverse + system python 3.10 with pip+venv installed
    • full had python installed normally (THIS IS THE ONE I SHOULD USE), the alternative had --no-recommends on
  • rver_pyenv: rver + tidyverse + pyenv/venv
• rstudio - same as rver
• python
  • python_r - python + r-base + tidyverse
  • python_rig_renv - python + rig + renv + tidyverse
• miniconda
  • miniconda with an environment containing python + r-essentials

Location of repositories see josephrich98/base_image for curated versions

• python: python
• r-ver: rocker/r-ver
• rstudio: rocker/rstudio
• jupyter: jupyter/datascience-notebook, jupyter/r-notebook, jupyter/scipy-notebook
• miniconda: continuumio/miniconda3
• r_base: r-base
• bioconductor: bioconductor/bioconductor_docker

Image priorities:

• Python project: python 3.10 > python 3.9 > jupyter scipy > miniconda
• R project: r-ver > r-ver-bioconductor > rstudio > jupyter r > r-base
  • 4.3.1 > 4.2.2
• Python-R crosstalk project:
  • r-focused: r-ver/rstudio docker + system python > r-ver/rstudio docker + pyenv python > r-ver/rstudio docker + conda python > jupyter datascience
  • python-focused: python docker + r-base > python docker + rig/renv > jupyter datascience
  • if needing python conda: r-ver/rstudio docker + conda python
  • if needing r+python conda: miniconda > jupyter datascience