rpolicastro/RNAseq:latest
$ singularity pull shub://rpolicastro/RNAseq:latest
Singularity Recipe
Bootstrap: docker
From: continuumio/miniconda3
%post
## Add conda to path
export PATH=$PATH:/opt/conda/bin
## Update conda
conda update -n base -y -c defaults conda
## Install RNA-seq analysis software
conda create -n rnaseq-automation -y -c conda-forge -c bioconda \
pandas fastqc star samtools subread \
r-tidyverse bioconductor-rtracklayer bioconductor-genomicranges bioconductor-genomicfeatures \
bioconductor-edger bioconductor-deseq2 bioconductor-clusterprofiler bioconductor-reactomepa
## Update rnaseq-automation environment
#conda update -n chip-downsampling -y --strict-channel-priority -c conda-forge -c bioconda --all
## Clean up extra files
conda clean -y --all
Collection
- Name: rpolicastro/RNAseq
- License: GNU General Public License v3.0
View on Datalad
Metrics
key | value |
---|---|
id | /containers/rpolicastro-RNAseq-latest |
collection name | rpolicastro/RNAseq |
branch | dev |
tag | latest |
commit | 274655bac181b9ee23c92848ed0b80f948d23003 |
version (container hash) | 277ba535bebda2188b8c66ae3b95191d |
build date | 2020-01-30T16:16:27.238Z |
size (MB) | 5541 |
size (bytes) | 1742438431 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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