![]() ![]() Juicer is a pipeline optimized for parallel computation on a cluster. LSF - scripts for running pipeline and postprocessing on LSF Deprecated UGER - scripts for running pipeline and postprocessing on UGER (Univa) Deprecated AWS - scripts for running pipeline and postprocessing on AWS Deprecated CPU - scripts for running pipeline and postprocessing on a single CPU SLURM - scripts for running pipeline and postprocessing on SLURM For cloud computing, we recommend the ENCODE uniform processing pipeline based on Juicer ![]() The SLURM and CPU scripts are the most up to date. ![]() Univa Grid Engine, SLURM, and a single CPU. In this repository, we include the scripts for running Juicer on AWS, LSF, Questions?įor FAQs, or for asking new questions, please see our forum: /forum.html. Please see the wiki for extensive documentation. "Juicer provides a one-click system for analyzing loop-resolution Hi-C experiments." Cell Systems 3(1), 2016. Hesitate to contact us ( you use Juicer in your research, please cite: If you have any difficulties using Juicer, please do not If you are interested in running Juicer in the cloud, you may want to check out the dockerized version The main repository on Github is now focused on the Juicer 2.0 release and is under active development. The beta release for Juicer version 1.6 can be accessed via the Github Release. In thisĭistribution, we include the pipeline for generating Hi-C maps from fastq rawĭata files and command line tools for feature annotation on the Hi-C maps. Juicer is a platform for analyzing kilobase resolution Hi-C data. If you encounter any bugs, please let us know.ĮNCODE's Hi-C uniform processing pipeline based on Juicer can be found here. If you clone the Juicer repo directly from Github, it will clone Juicer 2, which is under active development. To access Juicer 1.6 (last stable release), please see the Github Release. ![]()
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