Replacing read.table with data.table::fread()

broadinstitute / infercnv

Inferring CNV from Single-Cell RNA-Seq

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Replacing read.table with data.table::fread() #489

Closed SNOL2 closed 1 year ago

SNOL2 commented 1 year ago

Hi, thanks for this great tool. I think using data.table::fread() to load file may be faster when reading large files. Thanks again!

GeorgescuC commented 1 year ago

Hi @SNOL2 ,

Yes, that is true. We actually have an extra script to read the counts matrix using fread() and make a sparse matrix rds file to use in infercnv available in scripts/. The code has not been included in the main methods but I will try to get around to do it.

Regards, Christophe.

SNOL2 commented 1 year ago

@GeorgescuC , Thanks!