From 85e2ea976114188fd87a5c142a57c3d49e4ca07b Mon Sep 17 00:00:00 2001 From: Hui Lan Date: Wed, 14 May 2025 18:17:33 +0800 Subject: TODO: speed things up --- Code/buildRmatrix.py | 1 + 1 file changed, 1 insertion(+) (limited to 'Code') diff --git a/Code/buildRmatrix.py b/Code/buildRmatrix.py index bb5fdfb..a4f4af7 100644 --- a/Code/buildRmatrix.py +++ b/Code/buildRmatrix.py @@ -7,6 +7,7 @@ # Last modified 5 Apr 2017, hui, slcu # Last modified 25 Oct 2019, hui, zjnu [Comments; add a variable WARN_NA to turn on/off print NA warnings.] # Last modified 10 Oct 2020, hui, zjnu [note that if there are more than 1000 RNA-seq samples, this script requires at least 7GB memory to run.] +# TODO: this version is too slow. For example, making a TPM.txt with 5178 columns will take at least 12 hours. Should speed this up by using more memory (e.g., 12 GB), not a big deal nowadays. import os, sys, glob from configure import TPM_FILE -- cgit v1.2.1