A DSL for data-driven computational pipelines
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sge
Repositories 30
Tools for computation on batch systems
R package to send function calls as jobs on LSF, SGE, Slurm, PBS/Torque, or each via SSH
R
Updated Oct 5, 2018
R
Updated Aug 12, 2018
EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource
ensembl
workflow-management-system
perl
java
python
mysql
sqlite
postgresql
high-performance-computing
lsf
sge
htcondor
pbs-pro
pipeline
farm
pbspro
ehive
docker
docker-swarm
Perl
Updated Oct 18, 2018
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes.
python
bioinformatics
orthologs
biology
phylogenetics
ncbi
ftp
blast
qsub
orthology-inference
pbs
bash
shell
genetics
sequence-alignment
orthology
orthologues
sge
biosql
data-science
Python
Updated Sep 29, 2018
An information-theoretic pipeline for methylation analysis of WGBS data
R
Updated Jul 18, 2018
Longbow is a tool for automating simulations on a remote HPC machine. Longbow is designed to mimic the normal way an …
high-performance-computing
job-submission
automation
scientific-computing
pbs-pro
torque
lsf-jobs
slurm
sge
bioinformatics
biosimulation
molecular-dynamics
gromacs
amber
lammps
namd
charmm
supercomputer
job-scheduler
job-queue
Python
Updated Sep 28, 2018
A simple job manager for PBS (Portable Batch System)
Python
Updated Sep 14, 2017
Execution and management of Docker containers in batch systems.
Python
Updated May 31, 2017
Module to create DAG Task and Manage Task on SGE
Python
Updated Mar 16, 2018
A cli for running multiple qsub jobs with HTSeq's htseq-count on a cluster.
A wrapper for the various MPI implementations on Legion to abstract them so that users don't need to know all the opt…
Shell
Updated May 15, 2018
An R package to submit arbitrary jobs to a remote SGE cluster
Utilities to support interacting with multiple HPC clusters
Custom terminal setup for Linux and Mac
Shell
Updated Sep 14, 2018
A library to access different kinds of cluster backends
Groovy
Updated Aug 21, 2018
Running cellprofiler on eddie3 / SGE clusters
Python
Updated Oct 2, 2018
Some scripts for managing nodes and jobs on SGE
SGE Meadow for Ensembl Hive
Perl
Updated Aug 20, 2018
Docker container with CentOS6 & SGE installed
Shell
Updated Dec 12, 2017
Proof-of-concept, MPI-based distributed training of a neural network on SGE HPCs.
Python
Updated Aug 6, 2018
Pipeline construction and execution in R
R
Updated Sep 9, 2018
This repository contains a subset of the FieldTrip code related to distributed computing
Matlab
Updated Aug 26, 2018
Dockerfile to build a container with SGE installed
Generate eddie3 submission scripts in python
Python
Updated Sep 30, 2018
Running make on an SGE
Shell
Updated Dec 7, 2017
Basic tutorial on the use of the HPC Abacus at the School of Biological Sciences, University of Canterbury
R
Updated Apr 16, 2018
scala utils for the sun grid engine
Scala
Updated Apr 27, 2017