Research Resource Discovery

Viewing: 101 - 125 of 150.

Globus Auth ID Explorer

Tool that enables developers and service operators to see Globus Auth API OIDC and OAuth2 application visible data for authenticated users.

Affiliation: XSEDE
Provider: The Extreme Science and Engineering Discovery Environment (XSEDE)
Type: Network Service

hadoop 2.7.2

A Big Data processing framework.

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

hdf5 1.10.4

General purpose library and file format for storing scientific data (Serial Version).

Affiliation: XSEDE
Provider: Texas Advanced Computing Center (TACC)
Type: Executable Software
Resource: stampede2.tacc.xsede.org

hdf5 1.8.16

General purpose library and file format for storing scientific data (Serial Version).

Affiliation: XSEDE
Provider: Texas Advanced Computing Center (TACC)
Type: Executable Software
Resource: stampede2.tacc.xsede.org

homer 4.9_2-20-2017

A suite of tools for Motif Discovery and next-gen sequencing analysis

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

htseq 0.9.1

HTSeq is a Python package that provides infrastructure to process data from high-throughput sequencing assays.

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

humann2 0.10.0

The HMP Unified Metabolic Analysis Network 2

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

I535-MGMT-DATA-FA20

Anaconda and related packages are installed

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

I535-MGMT-DATA-FA20

Set default python to python 3 and installed pandas, pyspark, matplotlib, pymongo etc

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

I535-MGMT-DATA-FA20

installed jupyterlab, pandas, pyspark, pymongo, and pandas in Python3

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

infernal 1.1.2

Infernal - Sequence analysis using profiles of RNA sequence and secondary structure consensus

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

InterProScan-5.30-69.0

InterPro is a database which integrates together predictive information about proteins' function from a number of partner resources, giving an overview of the families that a protein belongs to and the domains and sites it contains

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

kallisto 0.43.0

Kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

khmer 2.0

A set of command-line tools for working with DNA shotgun sequencing data

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

Matlab Minimal

Matlab R2018a with Update 6 built on Ubuntu 18.04 LTS Development + GUI support + Docker Based on Ubuntu cloud image for 18.04 LTS with basic dev tools, GUI/Xfce added Installation size ~ 15 GB -- **requires m1.small or larger** Installation folder: /opt/MATLAB/R2018a Products: MATLAB Bioinformatics Toolbox 4.10 Curve Fitting Toolbox 3.5.7 Database Toolbox 8.1 Econometrics Toolbox 5.0 Financial Toolbox 5.11 Global Optimization Toolbox 3.4.4 Image Processing Toolbox 10.2 Neural Network Toolbox 11.1 Optimization Toolbox 8.1 Parallel Computing Toolbox 6.12 Partial Differential Equation Toolbox 3.0 Statistics and Machine Learning Toolbox 11.3 Symbolic Math Toolbox 8.1 SimuLink is NOT installed!

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

meraculous 2.2.4

A whole genome assembler for NGS data geared for large genomes.

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

minced 0.2.0

MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org

MongoDB_NodeJS on CentOS 7 v.1.0

MongoDB and Node.js on CentOS 7.4 for NoSQL database and back-end service.

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

MySQL server

Based on the Ubuntu 16_04 Docker image, this image has mysql installed to allow the use of programs such as PASA, OrthoMCL and Trinotate to access database functions.

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

Neurepiomics_EPACTS_TEST

A version of the Neurepiomics image with data and scripts

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

phdf5 1.10.4

General purpose library and file format for storing scientific data (Parallel Version).

Affiliation: XSEDE
Provider: Texas Advanced Computing Center (TACC)
Type: Executable Software
Resource: stampede2.tacc.xsede.org

phdf5 1.8.16

General purpose library and file format for storing scientific data (Parallel Version).

Affiliation: XSEDE
Provider: Texas Advanced Computing Center (TACC)
Type: Executable Software
Resource: stampede2.tacc.xsede.org

Photoscan_Large

To run larger datasets on Photoscan

Affiliation: XSEDE
Provider: Indiana University (IU) Pervasive Technology Institute (PTI)
Type: Cloud Image

platanus 1.2.4

Platanus is a de novo sequence assembler for NGS data.

Affiliation: XSEDE
Provider: Pittsburgh Supercomputing Center (PSC)
Type: Executable Software
Resource: bridges.psc.xsede.org



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