search

davidnboone / tcga_brca_rnaseq

jupyter notebook; perform differential gene expression analysis using DESeq2 on TCGA RNAseq data
29 stars 16 forks source link

speed up reading in df81 #8

Open davidnboone opened 5 years ago

davidnboone commented 5 years ago

Use fread instead of read.table to increase the speed. change command to:

df81.tmp <- data.frame(fread("./raw_data/ensembl81.gtf"))

or

df81.tmp <- fread("./raw_data/ensembl81.gtf", data.table=options(datatable.fread.datatable=FALSE))

davidnboone commented 5 years ago

Done on 3/1/19