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mdozmorov / TCGAsurvival

Scripts to analyze TCGA data
GNU General Public License v3.0
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Issue with TCGA2Stat #1

Closed talele closed 5 years ago

talele commented 5 years ago

The line get_data(cancers = cancer_TCGA, data.type = data.type, type = type, data_dir = data_dir, force_reload = TRUE) returns with error in TCGA2STAT.

Installing TCGA2STAT was no good since current version 3.5.1 is not supported. Any work arounds?

mdozmorov commented 5 years ago

Do you refer to 3.5.1 version of R? I have TCGA2STAT v.1.2 running on R v.3.6.0, all works.

talele commented 5 years ago

Indeed, updating R to v3.6 and installing TCGA2STAT v.1.2 worked! Thanks Mikhail!

ksrinivasprabhu1999 commented 4 years ago

Do you refer to 3.5.1 version of R? I have TCGA2STAT v.1.2 running on R v.3.6.0, all works.

How did you get TCGA2STAT v.1.2 ? I am not able to install it. Please help. Thanks.

mdozmorov commented 4 years ago

Just follow the instructions http://www.liuzlab.org/TCGA2STAT/#install-from-download-package

Download from https://github.com/zhandong/TCGA2STAT

You'll need to install CNTools beforehand, and it all works.

Install as install.packages("TCGA2STAT_1.2.tar.gz", repos = NULL, type = "source")