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llpswise's Introduction

LLPSWise

computational prediction of biological liquid-liquid phase separation systems

https://www.biorxiv.org/content/10.1101/2022.07.25.501404v1

Getting Started

  1. pre-requirements: see Code/packages.ini
  2. data requirements:

a) Download PPI data （"BIOGRID-ORGANISM-Homo_sapiens-4.4.207.tab3.txt"） from biogrid

https://downloads.thebiogrid.org/BioGRID/Release-Archive/BIOGRID-4.4.211/

and change the path in main.py

b) Create uniprot database from https://www.uniprot.org/help/downloads

mkdir uniprotDB

wget https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.dat.gz

split the .dat file and rename those file as uniprotID.txt

  1. start the query python main.py --id [uniprotID]

llpswise's People

Contributors

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