gevro

It is a bisulfite RRBS WGS sample. Is this simply an indication of low conversion efficiency?

Sorry, I meant to write it is WGBS. Is this pattern abnormal for WGBS?

Thanks!

Hello, I'm curious if you have info on this? Thanks

I traced the bug to something even weirder. A different object under the bam object is modified in a prior line of code per a recommendation of issue #65 :...

Interactive and Rscript both seem the same: Interactive: ``` R version 4.2.0 (2022-04-22) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 22.04 LTS Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.10.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.10.0 locale: [1]...

Update - I found a workaround, though still no idea what the bug is caused by- Before this step: ``` bam$subseq[includereads]

Hi, This bug is happening again. I have created a reproducible code and input data. Can someone connect with me so I can transfer to them the code and data...

THanks. 1. sessionInfo, after loading all the libraries used by the script: ``` # > sessionInfo() # R version 4.3.1 (2023-06-16) # Platform: x86_64-pc-linux-gnu (64-bit) # Running under: Ubuntu 22.04.1...

Interesting - looks like this error is no longer happening after the upgrade! I wonder what the issue was... This was the strangest bug I've ever seen in R.