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envfair.yaml
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envfair.yaml
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channels :
- r
- conda-forge
- bioconda
- main
- default
dependencies :
- python=3.7.6 # specify python version ( not required but can help with downstream conflicts )
- snakemake-minimal=5.10.0 # workflow manager
- pandas =0.23 # read and browse data frame
- pip
- singularity
# Report snakemake
- conda-forge::jinja2=2.11.2
- conda-forge::networkx=2.5
- conda-forge::pygraphviz=1.6
- conda-forge::pygments=2.7.2
# Text editor
- conda-forge::vim
# For visualizing workflows
- graphviz=2.42.3
- xorg-libxrender
- xorg-libxpm
- conda-forge::r-rmarkdown=2.5
- conda-forge::r-tidyverse=1.3.0
# R and statistic packages
- bioconductor-deseq2 =1.28.0
- conda-forge::r-plotly=4.9.2.1
- conda-forge::r-htmlwidgets=1.5.2
- conda-forge::r-ggplot2=3.3.2
- conda-forge::r-pheatmap=1.0.12
#- conda-forge::r-readr=1.3.1
#- bioconductor-ihw
- conda-forge::r-rcolorbrewer=1.1_2
- conda-forge::r-dt=0.16
- bioconductor-apeglm=1.10.0
- bioconductor-pcaexplorer=2.14.0
- bioconductor-enhancedvolcano=1.8.0