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MengQiuchen / cPeaks

Consensus peaks of chromatin accessibility in the human genome
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Problem when running with ArchR #9

Closed nvribeiro closed 4 months ago

nvribeiro commented 4 months ago

Hello,

I am trying to use cPeaks with the ArchR workflow, and for that I am following the instructions described here: https://github.com/MengQiuchen/cPeaks/blob/main/Tutorials/docs/cPeaks_ArchR.md

When I run the line proj <- addIterativeLSI(ArchRProj = proj, useMatrix = "FeatureMatrix", name = "IterativeLSI", force=TRUE) I get the following error:

Error in h5read(x, paste0(useMatrix, "/Info/Units")) : Object 'FeatureMatrix/Info/Units' does not exist in this HDF5 file.

I am using the file cpeaks_hg38.bed. Any ideas on how to fix this error?

Thank you! Kind regards, Nathan

nvribeiro commented 4 months ago

Sorry, I don't know what was causing the error but I tried again from the beginning and now it worked so I am closing the issue.