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Owens, Pitzer

Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens

Gurobi is a mathematical optimization solver that supports a variety of programming and modeling languages.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens

LS-OPT is a package for design optimization, system identification, and probabilistic analysis with an interface to LS-DYNA.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens, Pitzer

Clustal W is a multiple sequence alignment program written in C++.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens, Pitzer

MUSCLE is a program for creating multiple alignments of protein sequences.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens, Ruby

This documentation describes how to install tensorflow package locally in your $HOME space.

Load python module

module load python/3.6-conda5.2

Clone python installation to local directory

Three alternative create commands are listed.  These cover the most common cases:

Owens, Pitzer
  • "Horovod is a distributed training framework for TensorFlow, Keras, PyTorch, and MXNet. The goal of Horovod is to make distributed Deep Learning fast and easy to use. The primary motivation for this project is to make it easy to take a single-GPU TensorFlow program and successfully train it on many GPUs faster."

Quote from Horovod Github documentation

Owens, Pitzer

metilene is a software tool to annotate differentally methylated regions and differentially methylated CpG sites.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Owens, Pitzer, Ruby

Introduction

OSCprojects is a command developed at OSC for use on OSC's systems and is used to view your logged in accounts project information.

Owens, Pitzer, Ruby

Introduction

OSCgetent is a command developed at OSC for use on OSC's systems and is similar to the standard getent command. It lets one view group information.

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