Repositories list

• singularity-giotto

  Public
  Giotto Suite is a major upgrade to the Giotto package that provides tools to process, analyze and visualize spatial multi-omics data at all scales and multiple resolutions.

  R

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 30, 2024Dec 30, 2024

• singularity-mc

  Public
  GNU Midnight Commander is a visual file manager, licensed under GNU General Public License and therefore qualifies as Free Software.

  utilitiessingularity

  Lua

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 29, 2024Dec 29, 2024

• singularity-octave

  Public
  GNU Octave is software featuring a high-level programming language, primarily intended for numerical computations

  singularitynumerical-computation

  Shell

  •

  Apache License 2.0

  •1•0•0•0•Updated Dec 28, 2024Dec 28, 2024

• singularity-samtools

  Public
  Samtools is a suite of programs for interacting with high-throughput sequencing data.

  bioinformaticssingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 27, 2024Dec 27, 2024

• singularity-ncdu

  Public
  ncdu is a disk utility for Unix systems

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 27, 2024Dec 27, 2024

• singularity

  Public
  Just a list of Singularity definition files maintained by the Biomed Applications Group

  singularitybiomedical-informaticscontainerization+ 1biomedical-data-science

  Python

  •0•0•0•0•Updated Dec 23, 2024Dec 23, 2024

• singularity-aspera-connect

  Public
  Aspera Connect helps you securely move file and folders of any size.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 23, 2024Dec 23, 2024

• workflow-examples

  Public
  Just a collection of workflow examples for use on Bridges-2

  Jupyter Notebook

  •0•1•0•0•Updated Dec 20, 2024Dec 20, 2024

• psc-wpdocs

  Public
  WeDocs repo for documentation on PSC.edu

  4•1•1•0•Updated Dec 3, 2024Dec 3, 2024

• singularity-imagemagick

  Public
  Use ImageMagick® to create, edit, compose, or convert digital images.

  utilitiessingularityimage-processing

  Shell

  •

  Apache License 2.0

  •0•0•1•0•Updated Oct 24, 2024Oct 24, 2024

• singularity-dust

  Public
  du + rust = dust. Like du but more intuitive.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

• singularity-dua

  Public
  View disk space usage and delete unwanted data, fast.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Oct 23, 2024Oct 23, 2024

• singularity-visidata

  Public
  VisiData is an interactive multitool for tabular data.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •1•0•0•0•Updated Oct 20, 2024Oct 20, 2024

• singularity-hyperfine

  Public
  A command-line benchmarking tool.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•1•0•Updated Oct 18, 2024Oct 18, 2024

• singularity-bioformats2raw

  Public
  Bio-Formats image file format to raw format converter.

  utilitiesimage-processingsingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Aug 25, 2024Aug 25, 2024

• singularity-nanoplot

  Public
  Plotting scripts for long read sequencing data

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Jun 6, 2024Jun 6, 2024

• singularity-beast2

  Public
  BEAST 2 is a cross-platform program for Bayesian phylogenetic analysis of molecular sequences.

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated May 30, 2024May 30, 2024

• bridges2-examples

  Public
  Different job examples running on Bridges-2

  Jupyter Notebook

  •1•7•0•0•Updated May 24, 2024May 24, 2024

• singularity-pandoc

  Public
  Pandoc is a free and open-source document converter, widely used as a writing tool and as a basis for publishing workflows.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •1•0•0•0•Updated May 13, 2024May 13, 2024

• singularity-canu

  Public
  Lua

  •

  Apache License 2.0

  •0•0•0•0•Updated May 8, 2024May 8, 2024

• singularity-graphviz

  Public
  Graphviz is a package of open-source tools initiated by AT&T Labs Research for drawing graphs specified in DOT language scripts.

  utilitiessingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated May 8, 2024May 8, 2024

• practical-intro-to-apptainer

  Public
  Exercises for the "Practical Intro to Apptainer in Bridges-2"

  Roff

  •0•0•0•0•Updated Apr 30, 2024Apr 30, 2024

• singularity-guppy

  Public
  Guppy is a data processing toolkit that contains the Oxford Nanopore Technologies’ basecalling algorithms.

  bioinformaticssingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Apr 18, 2024Apr 18, 2024

• ml4docs

  Public
  Machine Learning for Docs projects developed in collaboration with Prof. Raja Adal at Pitt.

  0•1•0•0•Updated Apr 13, 2024Apr 13, 2024

• ml4docs-automation

  Public
  Shell

  •0•0•0•0•Updated Apr 12, 2024Apr 12, 2024

• neocortex-public

  Public
  Jupyter Notebook

  •

  BSD 2-Clause "Simplified" License

  •1•3•0•0•Updated Mar 29, 2024Mar 29, 2024

• singularity-circos

  Public
  Circos is a software package for visualizing data and information.

  singularityutlities

  Singularity

  •

  Apache License 2.0

  •0•0•0•0•Updated Mar 29, 2024Mar 29, 2024

• singularity-filtlong

  Public
  Quality filtering tool for long reads

  bioinformaticssingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Mar 28, 2024Mar 28, 2024

• singularity-porechop

  Public
  Adapter trimmer for Oxford Nanopore reads

  bioinformaticssingularity

  Shell

  •

  Apache License 2.0

  •0•0•0•0•Updated Mar 28, 2024Mar 28, 2024

• apptainer-singularityce

  Public
  Singularity Community Edition is 100% open source, BSD licensed software available for free.

  utilitiesopen-sciencecontainerization

  Lua

  •

  Apache License 2.0

  •0•0•0•0•Updated Mar 8, 2024Mar 8, 2024