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https://github.com/warelab/maizecode

Homepage for the MaizeCode project on leveraging the CyVerse infrastructure
https://github.com/warelab/maizecode

Last synced: 20 days ago
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Homepage for the MaizeCode project on leveraging the CyVerse infrastructure

Host: GitHub
URL: https://github.com/warelab/maizecode
Owner: warelab
Created: 2017-09-21T19:00:00.000Z (over 7 years ago)
Default Branch: master
Last Pushed: 2020-11-01T16:50:55.000Z (about 4 years ago)
Last Synced: 2024-06-11T16:41:34.400Z (7 months ago)
Language: HTML
Size: 67.5 MB
Stars: 0
Watchers: 2
Forks: 2
Open Issues: 0
Metadata Files:
- Readme: README.md

Awesome Lists containing this project

README

        # maizecode

Information about the MaizeCode project on utilizing the CyVerse infrastructure and SciApps.

* [MaizeCode Data Management Overview](docs/MaizeCode-data-management.md)

* Apps and Workflows Development

  * List of workflows

    * [RNA-Seq workflow](wrappers/rna-seq_workflow/README.md)

  * [SciApps platform guide](https://cyverse-sciapps-guide.readthedocs-hosted.com/en/latest/index.html)

  * [Optimizing modular Agave apps for SciApps](docs/Agave-SciApps.md)

  * [Listing of Singularity images installed on SciApps](docs/Singularity-SciApps.md)

    * [DE Tool development using Bioconda and Biocontainers](https://pods.iplantcollaborative.org/wiki/display/TUT/Biocontainers+for+the+Discovery+Environment) ([internal link](https://wiki.cyverse.org/wiki/display/csmgmt/DE+Tool+Docker+Image+registration+and+installation+using+Bioconda+and+Biocontainers))

    * [BioConda recipes](https://github.com/bioconda/bioconda-recipes)

    * [Docker 2 Singularity](https://github.com/singularityware/docker2singularity)

* Data Release

  * [MaizeCode.org](http://www.maizecode.org/data/)

  * [CyVerse Data Commons](http://datacommons.cyverse.org/)

  * NCBI Sequence Read Archive (SRA) Submission Tutorial

    * [CyVerse Wiki tutorial](https://wiki.cyverse.org/wiki/pages/viewpage.action?pageId=20351132)

    * [CyVerse Learning Center tutorial](https://learning.cyverse.org/projects/sra_submission_quickstart/en/latest/)

    * [NCBI submission portal](https://www.ncbi.nlm.nih.gov/sra/docs/submitportal/)

  * NCBI Whole Genome Shotgun (WGS) Submission Tutorial

    * [CyVerse Wiki tutorial](https://wiki.cyverse.org/wiki/pages/viewpage.action?pageId=34834057)

    * [NCBI genome submission](https://www.ncbi.nlm.nih.gov/genbank/genomesubmit/)