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HajkD / LTRpred

De novo annotation of young retrotransposons
https://hajkd.github.io/LTRpred/
GNU General Public License v2.0
46 stars 8 forks source link

could not install biocLite.R #8

Closed wangj2009 closed 5 years ago

wangj2009 commented 5 years ago

> source("http://bioconductor.org/biocLite.R") Error: With R version 3.5 or greater, install Bioconductor packages using BiocManager; see https://bioconductor.org/install

> BiocManager::install(c("biocLite.R")) Bioconductor version 3.9 (BiocManager 1.30.7), R 3.6.1 (2019-07-05) Installing package(s) 'biocLite.R' Warning message: package ‘biocLite.R’ is not available (for R version 3.6.1)

wangj2009 commented 5 years ago

I could not find LTRpred or HajkD in Bioconductor. https://www.bioconductor.org/packages/release/BiocViews.html#___Software

HajkD commented 5 years ago

Hi,

LTRpred itself is not on Bioconductor, but LTRpred uses some Bioconductor packages as dependencies. So it is more convenient to use their BiocManager::install() function to install everything.

You can also try the following:

library(devtools)
install_github("HajkD/LTRpred", build_vignettes = TRUE, dependencies = TRUE)