load_dependencies.R

In lanagarmire/Granatum: Graphical Single-Cell RNA-Seq Analysis Pipeline for Genomics Scientists

library(Rtsne)
library(preprocessCore)
library(igraph)
library(monocle)
library(visNetwork)
library(limma)
library(edgeR)
library(scde)
library(sva)

library(shiny)
library(htmltools)
library(shinyjs)

library(htmlwidgets)
library(plotly)

library(fgsea)
library(KEGG.db)
library(GO.db)

library(org.Hs.eg.db)
library(org.Mm.eg.db)


library(Rlof)

library(scales)
library(reshape2)
library(purrr)
library(readr)
library(stringr)
library(tidyr)
library(tibble)
library(pracma)
library(forcats)
library(dplyr)

library(SummarizedExperiment)

source('R/nodesDiffExp.R')
source('R/keggAnalysis.R')
source('R/geneOntologyAnalysis.R')
source('R/diff_exp.R')
source('R/monocle.R')
source('R/subsampling_PCA.R')

detach('package:dplyr')
library(NMF)
library(dplyr)

library(impute)

library(scImpute)
library(SAVER)