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wrangling-transcriptomics

A Carpentries-style lesson on transcriptomics, adapted from the wrangling-genomics lesson in the DC/Genomics workshop.

https://github.com/btmoyers/wrangling-transcriptomics

Science Score: 57.0%

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Repository

A Carpentries-style lesson on transcriptomics, adapted from the wrangling-genomics lesson in the DC/Genomics workshop.

Basic Info
Statistics
  • Stars: 0
  • Watchers: 1
  • Forks: 1
  • Open Issues: 0
  • Releases: 0
Created over 1 year ago · Last pushed 9 months ago
Metadata Files
Readme Contributing License Code of conduct Citation Authors Zenodo

README.md

Wrangling Transcriptomics

Lesson for quality control and wrangling RNA-Seq data. This repository is modified from the Data Carpentry Genomics Workshop lesson on Wrangling Genomic Data.

Background

Wrangling transcriptomics trains novice learners on a read counting workflow. Participants will learn how to evaluate sequence quality and what to do if it is not good. We will then cover aligning reads to a genome, and counting reads, as well as discussing different file formats. Results will be visualized. Finally, we will cover how to automate the process by building a shell script.

Contribution

  • Make a suggestion or correct an error by creating a pull request.

Code of Conduct

All participants should agree to abide by the Data Carpentry Code of Conduct.

Authors

Wrangling transcriptomics is authored and maintained by Brook Moyers (btmoyers on Github)

Citation

This repo is modified from:

Erin Alison Becker, Taylor Reiter, Fotis Psomopoulos, Sheldon John McKay, Jessica Elizabeth Mizzi, Jason Williams, … Winni Kretzschmar. (2019, June). datacarpentry/wrangling-genomics: Data Carpentry: Genomics data wrangling and processing, June 2019 (Version v2019.06.1). Zenodo. http://doi.org/10.5281/zenodo.3260609

Owner

  • Name: Brook Moyers
  • Login: btmoyers
  • Kind: user
  • Location: Boston, MA, USA
  • Company: University of Massachusetts Boston

Assistant Professor of Ecological Genomics --- I study how and why individuals vary within crop species wild relatives.

Citation (CITATION) 

You do not need to cite this repo, but you may cite its original repo:

Josh Herr, Ming Tang, Lex Nederbragt, Fotis Psomopoulos (eds): "Data Carpentry: Wrangling Genomics Lesson."
Version 2017.11.0, November 2017,
http://www.datacarpentry.org/wrangling-genomics/,
doi: 10.5281/zenodo.1064254

GitHub Events

Total
  • Issue comment event: 1
  • Push event: 16
  • Pull request event: 1
  • Fork event: 1
Last Year
  • Issue comment event: 1
  • Push event: 16
  • Pull request event: 1
  • Fork event: 1

Dependencies

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