I want to import an expression .csv file in R studio ,but the size limit is 5 mb max my file is 30 mb how do I do that?
The file is mrna seq data from TCGA which I want to extract.How can I do that is there any way to import the huge file and see ?
4 answers
fread() from data.table package is blazing fast for reading large files. It tries to guess the delimiter and header automatically. It will give you an object of class "data.table", which is very similar to data.frame though quirky sometimes. You can easily convert it to your familiar data.frame by using as.data.frame(x) or by using data.table=FALSE in the argument of fread().
Try using read.csv() rather than clicking on files. The limitation is there to prevent you from trying to edit large files, which will degrade performance significantly.
Log in to answer this question.
-
Calculating TMB for TCGA data
written by Jaber •
-
How to import downloaded multiple TCGA data in R?
written by Zahra •
-
Importing GEO dataset
written by gina02 •
-
TCGA expression dataset handling
written by imaparna27 •
-
How can I use WGCNA for constructing a co-expression network using TCGA project?
written by akhoundi.fatemeh68 •
-
analyze and compare PValues in 2 csv file by python
written by ali.hakimzadeh •
-
R Studio memory on Mac
written by evelyn
-
How to separate lncRNA and mRNA from RNA-Seq data for differential expression?
written by anilbioinfo1995 •
-
Point mutation as parameter in firebrowseR
written by rlf103 •
-
How To Get Mirna-Mrna Expression In Same Sample From Tcga ?
written by jack •
I think you may use ff lib
your_data <- read.csv.ffdf(file = 'your_file.csv', header = T)
other solution use bigmemory
the authors successfully load a CSV with size as large as 11GB
more details and other solution could be found here