Data

Tools

Indexes

Applications

Experiments

Open Source Science

ccsinglecell

A project focused on using single-cell RNA sequencing data (scRNA-seq) and pseudo time to improve colon cancer diagnosis and outcomes.

https://github.com/compbiolover/ccsinglecell

Science Score: 26.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (6.5%) to scientific vocabulary

Keywords

bioinformatics biology cancer cancer-detection healthcare oncology rna-seq single-cell
Last synced: 6 months ago · JSON representation

Repository

A project focused on using single-cell RNA sequencing data (scRNA-seq) and pseudo time to improve colon cancer diagnosis and outcomes.

Basic Info
  • Host: GitHub
  • Owner: compbiolover
  • License: gpl-3.0
  • Language: R
  • Default Branch: main
  • Homepage:
  • Size: 1.02 GB
Statistics
  • Stars: 6
  • Watchers: 1
  • Forks: 2
  • Open Issues: 0
  • Releases: 0
Topics
bioinformatics biology cancer cancer-detection healthcare oncology rna-seq single-cell
Created about 5 years ago · Last pushed 10 months ago
Metadata Files
Readme License Citation

README.md

CC Singlecell

A project focused on using single-cell RNA sequencing data (scRNA-seq) and pseudo time to improve colon cancer diagnosis and outcomes. If you find our work helpful please use the citation below:

Andrew Willems, Nicholas Panchy, and Tian Hong. Using Single-Cell RNA Sequencing and MicroRNA Targeting Data to Improve Colorectal Cancer Survival Prediction. (2023) Cells 12(2):228

Project Organization

bash CC-Singlecell/ R/ # Refactored, optimized R package code cell_dataset_builder.R cox_model.R mad_calculator.R etc... man/ # Documentation (auto-generated) vignettes/ # Usage tutorials tests/ # Unit tests inst/ bin/ # Command-line tools extdata/ # Example data legacy/ # Original code for reproducibility Code/ # Original code files Data/ # Original data files paper.Rmd # Original analysis data/ # Package datasets DESCRIPTION # Package metadata NAMESPACE # Export declarations README.md # Package documentation

Owner

  • Name: Andrew Willems
  • Login: compbiolover
  • Kind: user
  • Company: University of Tennessee, Knoxville

PhD student at the University of Tennessee, Knoxville. Interested in the intersection of data science, biology, and statistics

GitHub Events

Total
  • Watch event: 2
  • Delete event: 1
  • Push event: 8
  • Pull request event: 2
  • Create event: 1
Last Year
  • Watch event: 2
  • Delete event: 1
  • Push event: 8
  • Pull request event: 2
  • Create event: 1

Dependencies

DESCRIPTION cran
  • testthat >= 3.0.0 suggests