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Granatum

GUI students will use to visualize data. 

"Without a single line of programming code, users can click through the pipeline, setting parameters and visualizing results via the interactive graphical interface. Granatum conveniently walks users through various steps of scRNA-Seq analysis. It has a comprehensive list of modules, including plate merging and batch-effect removal, outlier-sample removal, gene-expression normalization, imputation, gene filtering, cell clustering, differential gene expression analysis, pathway/ontology enrichment analysis, protein network interaction visualization, and pseudo-time cell series construction." Zhu et al. Genome Medicine 9:108. doi:10.1186/s13073-017-0492-3

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Leigh Ann Samsa onto scRNAseq Analysis Resources

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

Original paper for case study dataset.

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Leigh Ann Samsa onto scRNAseq Analysis Resources

DATASET Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

Dataset for case study

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Leigh Ann Samsa onto scRNAseq Analysis Resources