安装不成功就用conda安装 conda install -c bioconda bioconductor-infercnv
Installing infercnv
There are several options for installing inferCNV. Choose whichever you prefer:
Option A: Install infercnv from BioConductor (preferred)
From within R, run the following:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("infercnv")
Option B: Install infercnv from BioConductor devel (latest version)
From within R, run the following:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install(version = "devel")
BiocManager::install("infercnv")
BiocManager::install("plyranges")
Option C: Install infercnv from the Release tar.gz file
If installing using command line, download the latest release of InferCNV. Then use the following command on command line.
R CMD install infercnv.tar.gz
Option D: Install infercnv from within R using devtools
If installing from directly within R, you can instead use the following command from within R.
conda install -c "conda-forge/label/gcc7" jags
library("devtools")
devtools::install_github("broadinstitute/infercnv")
Option E: Install inferCNV by pulling the code using git followed by source installation:
Alternatively, you can pull the code from github and install it like so:
git clone https://github.com/broadinstitute/infercnv
cd infercnv
R
> install.packages("./", repos=NULL, type="source")
.libPaths(c("/seu_share/home/chaojie/230218989/anaconda3/envs/r4.2.2/lib/R/library"))
其实不需要library，只要进入r4.2.2的环境就可以
library(infercnv) #https://github.com/broadinstitute/inferCNV/wiki
library(dplyr)
library(Seurat)
library(ggplot2)
library(parallelDist)
options(scipen = 100)
options(error = function() traceback(2))
Cstack_info()