CReSCENT
An intuitive and scalable web-portal for the standardized analysis of scRNA-seq data
Description: CReSCENT, the CanceR Single Cell ExpressioN Toolkit (https://crescent.cloud), is an intuitive and scalable web portal incorporating a containerized pipeline execution engine for standardized analysis of single-cell RNA-seq (scRNA-seq) data. While scRNA-seq data for cancer specimens are easily generated, subsequent analysis requires high-performance computing infrastructure and user-expertise to tailor interpretation for cancer. CReSCENT is populated with multiple public data sets and preconfigured pipelines that are user-editable to allow for optimization, comparison, and reanalysis on the fly. CReSCENT outputs interactive t-SNE, UMAP, and violin plots, allowing users to rapidly filter genes of interest without having to re-run the pipeline. In addition, plots, tables and R objects are downloadable through the user interface for offline analysis. The workflow is open-source and available at github.com/pughlab/crescent.
Authors: Suluxan Mohanraj, J Javier Díaz-Mejía, Martin D Pham, Hillary Elrick, Mia Husić, Shaikh Rashid, Ping Luo, Prabnur Bal, Kevin Lu, Samarth Patel, Alaina Mahalanabis, Alaine Naidas, Erik Christensen, Danielle Croucher, Laura M Richards, Parisa Shooshtari, Michael Brudno, Arun K Ramani & Trevor J Pugh
Lab: Pugh
Resource Type: Data Portal
Keywords: CReSCENT, scRNA-seq, datasets, pipeline, visualization, R
Licensing: GPL-3
Citation
Suluxan Mohanraj, J Javier Díaz-Mejía, Martin D Pham, Hillary Elrick, Mia Husić, Shaikh Rashid, Ping Luo, Prabnur Bal, Kevin Lu, Samarth Patel, Alaina Mahalanabis, Alaine Naidas, Erik Christensen, Danielle Croucher, Laura M Richards, Parisa Shooshtari, Michael Brudno, Arun K Ramani, Trevor J Pugh, CReSCENT: CanceR Single Cell ExpressioN Toolkit, Nucleic Acids Research, Volume 48, Issue W1, 02 July 2020, Pages W372–W379, https://doi.org/10.1093/nar/gkaa437