HMMCopy readcounter

Question

[shivangi.agarwal800]

Hello all,

I have successfully installed HMMCopy and IchorCNA in R using the following commands:

**install_github("broadinstitute/ichorCNA")**

**library(ichorCNA)**

**if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("HMMcopy")
library("HMMcopy")

While trying to run HMMCopy readcounter in R, I am not able to see its module readcounter.

readCounter**
Error: object 'readCounter' not found

I need your help in this regard.

Answer 1

[Jill]

You need to install an executable called HMMcopy suite that is not an R package (you need the R package later). It contains the readcounter tool that you need. You can find it here: https://github.com/shahcompbio/hmmcopy_utils