prenomics01-file-directories
Understanding file directories and introduction to the shell environment
Science Score: 75.0%
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✓codemeta.json file
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✓.zenodo.json file
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✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
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Organization cloud-span has institutional domain (cloud-span.york.ac.uk) -
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○Scientific vocabulary similarity
Low similarity (10.9%) to scientific vocabulary
Repository
Understanding file directories and introduction to the shell environment
Basic Info
- Host: GitHub
- Owner: Cloud-SPAN
- License: other
- Language: Python
- Default Branch: gh-pages
- Homepage: https://cloud-span.github.io/prenomics01-file-directories/
- Size: 5.8 MB
Statistics
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 0
- Releases: 1
Metadata Files
README.md
Prenomics Session 1. Understanding your file systems + the shell
Overview of the Cloud-SPAN Prenomics module.
Cloud-SPAN is a collaboration between the Department of Biology, University of York and The Software Sustainability Institute funded by the UKRI innovation scholars award (Project Reference: MR/V038680/1) which trains researchers, and the research software engineers that support them, to run specialised analyses on cloud-based high-performance computing infrastructure
The Prenomics module is designed to prepare people for the Cloud-SPAN Genomics module . We have found that people taking the Genomics module can vary the amount of experience they have had in navigating file systems and using the command line. We have designed the Prenomics module to allow more time for those with less experience to cover some foundation concepts. We have a Self-assessment Quiz to help you decide if you would benefit from attending Prenomics before the Genomics module.
The Prenomics and Genomics modules are based on the Data Carpentry's Genomics Workshop.
Prenomics teaches the basics of command-line programming, including: (1) file directory structure, (2) use of command-line utilities to connect to and use cloud computing and storage resources and (3) basic shell commands for file navigation and basic script writing.
The module is designed for a two half-day, tutor-led workshop, or for self study.
The prenomics module comprises 3 GitHub repositories: 1. The Overview repository for webpages at https://cloud-span.github.io/prenomics00-intro/ 2. Day 1 Files and directories for webpages at https://cloud-span.github.io/prenomics01-file-directories/ 3. Day 2 using the command line for webpages at https://cloud-span.github.io/prenomics02-command-line/
Owner
- Name: Cloud-SPAN
- Login: Cloud-SPAN
- Kind: organization
- Email: cloud-span-project@york.ac.uk
- Website: http://cloud-span.york.ac.uk/
- Repositories: 24
- Profile: https://github.com/Cloud-SPAN
Cloud-based High Performance Computing for SPecialised ANalyses on environmental 'omics
Citation (CITATION.cff)
cff-version: 1.1.0
message: "If you reuse this training material, please cite it as below."
authors:
- family-names: "Buenabad-Chavez"
given-names: "Jorge"
- family-names: "Cansdale"
given-names: "Annabel"
orcid: "https://orcid.org/0000-0001-9548-3110"
- family-names: "Chong"
given-names: "James"
orcid: "https://orcid.org/0000-0001-9447-7421"
- family-names: "Forrester"
given-names: "Sarah"
orcid: "https://orcid.org/0000-0001-8332-7196"
- family-names: "Greeves"
given-names: "Evelyn"
orcid: "https://orcid.org/0000-0003-4800-3422"
- family-names: "Rand"
given-names: "Emma"
orcid: "https://orcid.org/0000-0002-1358-8275"
title: "Cloud-SPAN Prenomics Course: Files and Directories"
version: 0.1.0
doi: 10.5281/zenodo.6354060
date-released: 2022-03-01
url: "https://cloud-span.github.io/prenomics01-file-directories/"
references:
- authors:
- family-names: "Becker"
given-names: "Erin Alison"
- family-names: "Teal"
given-names: "Tracy"
- family-names: "Michonneau"
given-names: "Francois"
- family-names: "Schurch"
given-names: "Anita"
- family-names: "McKay"
given-names: "Sheldon John"
- family-names: "Mizzi"
given-names: "Jessica Elizabeth"
date-released: "2019-06-01"
doi: 10.5281/zenodo.3260560
repository-code: "https://github.com/datacarpentry/shell-genomics/"
title: "Data Carpentry: Introduction to the shell for genomics data"
type: software
version: v2019.06.1
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