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databio / peppro

A modular, containerized pipeline for PRO-seq data processing
http://peppro.databio.org/
BSD 2-Clause "Simplified" License
10 stars 2 forks source link

Update refgenie docs #2

Closed nsheff closed 5 years ago

nsheff commented 5 years ago

New system will be much simpler. include a link to:

http://refgenie.databio.org/en/dev/install/

and this guide:

# Install refgenie: 
pip install --user refgenie
# Initialize a folder for genome indexes and config file
export REFGENIE=genome_folder/genome_config.yaml
refgenie init $REFGENIE
# Pull necessary assets
refgenie pull -g hg38 -a bowtie2_index
refgenie pull -g rCRSD -a bowtie2_index
...
jpsmith5 commented 5 years ago

Updated docs and using new system in current release [0.7.1]

nsheff commented 5 years ago

are you sure about section 4 on the GENOMES variable? Shouldn't that change to refgenie?