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dozmorovlab / multiHiCcompare

Joint normalization of multiple Hi-C matrices, visualization and detection of differential chromatin interactions, supporting covariates.
https://dozmorovlab.github.io/multiHiCcompare/
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Version Incompatibility? #16

Closed jlguidubaldi1 closed 1 year ago

jlguidubaldi1 commented 1 year ago

Hi All,

When trying to install all necessary packages to work with multiHiCcompare in R (https://dozmorovlab.github.io/multiHiCcompare/articles/multiHiCcompare.html), I am running into issues with R compatibility. It seems the packages ("multiHiCcompare", "strawr", etc) are all compatible with higher versions of R (such as 4.2.0 which I currently run), while certain functions (ex. "topDirs", "plot_pvals", etc) are not.

As a potential workaround, I tried changing my version or R to 4.0.2 (as indicated in the multiHiCcompare vignette documentation), but then encountered an issue of being unable to install the primary package (package ‘HiCcompare’ is not available (for R version 4.0.2)).

Does anyone have ideas for how to get around this compatibility issue so that I can run the full pipeline?

Thanks, Joe

mdozmorov commented 1 year ago

I have both packages installed in R version 4.2.2. Not sure what compatibility issues you encounter. Even HiCcompare should be compatible, it was available from R 3.4.0. Can you provide more details, what errors do you encounter? What part of the vignette?

mdozmorov commented 1 year ago

Closing due to inactivity.