https://github.com/databio/lolahema_pep
Portable Encapsulated Project for the LOLAHema database.
Science Score: 13.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
○.zenodo.json file
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○DOI references
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○Academic publication links
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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (5.7%) to scientific vocabulary
Repository
Portable Encapsulated Project for the LOLAHema database.
Basic Info
- Host: GitHub
- Owner: databio
- Language: R
- Default Branch: master
- Size: 167 KB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 1
- Releases: 0
Metadata Files
README.md
LOLAHema_PEP
Portable Encapsulated Project (PEP) for the LOLAHema database.
This PEP is specifically designed to encompass public AML relevant samples. The PEP sample sheet and config files can be accessed directly with the following links: - Sample sheet - YAML Config file
The .csv sample sheet contains the following attributes for each of the files:
- sample_name
- file_name
- genome
- experimental protocol
- cell type
- tissue
- antibody
- treatment
- data_source
- GSE
- GSM
- description
- file format
The attributes highlighted in bold are used to create derived attributes such as output_file_path which points to the location of the BED files produced by the bedmaker pipeline (please take a look at the config file). Accordingly, samples in this PEP can be easily processed with other PEP compatible pipelines such as bedstat and bedbuncher.
There is an additional PEP (lifOver_PEP) in the repository that contains files that have been liftedOver to different reference genome assemblies (e.g., hg19 to hg38).
Owner
- Name: Databio
- Login: databio
- Kind: organization
- Location: University of Virginia
- Website: https://databio.org
- Repositories: 88
- Profile: https://github.com/databio
Solving problems in computational biology
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Top Authors
Issue Authors
- nsheff (1)