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Analyses

The "Analysis" model in Pluto is a configurable recipe for running a bioinformatics pipeline

10 articles
Rani Powers, PhD avatarAndrew Goodspeed avatarMacKenzie Demmel avatar
Written by Rani Powers, PhD, Andrew Goodspeed and MacKenzie Demmel

Differential expression analysis

Compare genome-wide gene expression profiles across two groups
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago

Longitudinal analysis

Analyze data collected across repeated measures in one or more groups
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago

Adding comparisons for gene set enrichment analysis

Run differential expression to create a comparison for GSEA
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago

Gene set enrichment analysis (GSEA)

Calculate enrichment scores for gene sets from the MSigDB
Andrew Goodspeed avatar
Written by Andrew Goodspeed. Updated over a week ago

Summary analysis (CPM-normalized)

Use counts per million (CPM) normalization for assay data measuring raw counts
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago

Peak analysis

Analyze peaks across the whole genome
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago

Principal components analysis (PCA)

Use PCA dimensionality reduction
MacKenzie Demmel avatar
Written by MacKenzie Demmel. Updated over a week ago

Survival analysis

Overview of data formatting and methods for survival analysis
Andrew Goodspeed avatar
Written by Andrew Goodspeed. Updated over a week ago

Images

Upload images to be analyzed alongside your interactive plots
MacKenzie Demmel avatar
Written by MacKenzie Demmel. Updated over a week ago

Change log: Analyses

Version updates to Pluto's out-of-the-box analyses
Rani Powers, PhD avatar
Written by Rani Powers, PhD. Updated over a week ago