In lujunyan1118/seahorseCLL: Characterising CLL bioenergetics through Seahorse extracellular flux assay

Introduction

This package contains the data of bioenergetic features of 140 CLL samples and 9 B cell samples, measured by Seahorse extracellular flux assay. This package also reproduces figures presented in the paper "Energy metabolism is co-determined by genetic variants in chronic lymphocytic leukemia and influences drug sensitivity" by Lu J, Böttcher M et al.

---

In this vignette we present the integrative analysis of CLL bioenergetic data set and the source code for the paper.

This vignette is build from the sub-vignettes, which each can be build separatelly. The parts are separated by the horizontal lines. Each part finishes with removal of all the created objects.

.standalone=FALSE

library(seahorseCLL)
library(BloodCancerMultiOmics2017)
library(SummarizedExperiment)
library(ggbeeswarm)
library(xtable)
library(cowplot)
library(piano)
library(gridExtra)
library(grid)
library(genefilter)
library(pheatmap)
library(ggrepel)
library(GEOquery)
library(limma)
library(robustbase)
library(DESeq2)
library(survival)
library(maxstat)
library(survminer)
library(glmnet)
library(RColorBrewer)
library(reshape2)
library(gtable)
library(Biobase)
library(tidyverse)

---

---

---

---

---

---

---

End of session

sessionInfo()

lujunyan1118/seahorseCLL documentation built on May 12, 2019, 6:16 p.m.