Benedikt Obermayer

I'm encountering the same error with 10X scATAC-seq data. it appears during a call to `ProjectDim`, where the `assay` is not properly set (see [#1849](https://github.com/satijalab/seurat/issues/1849)) proposed fix to [Runharmony.R#L159](https://github.com/immunogenomics/harmony/blob/c8f4901ef92d6e9b4e1373c52de3b67ff052db3e/R/RunHarmony.R#L159) ```...

I was able to use @gleb-gavrish's [solution](https://github.com/mojaveazure/seurat-disk/issues/109#issuecomment-1114609145) and then add meta data like so (accounting for NA's in some of my categorical obs columns): ``` library(rhdf5) sobj

thanks for the reply. looking a bit more into the code, I suspected as much. I have to check whether my graphs are fully connected to see if the functionality...

ok, so I created a [fork](https://github.com/bobermayer/pynndescent/tree/save_unused_distances) where the distances discarded in the `heap_push` functions are saved instead to backup arrays. this seems to work but I haven't done any detailed...

hi, thanks a lot for sharing. this looks great, however, I'm unable to build the docker image (on ubuntu 22) even including the additional lines suggested by @rohitrrj. I'm still...

Hi @Neah-Ko thanks for your message. none of that worked, but I found a workaround by explicitly installing `libcrypt-dev` and copying `crypt.h` to the expected location (see https://github.com/stanford-futuredata/ColBERT/issues/309). Dockerfile ```...

hi, thanks a lot for looking into this. I don't think it's related to the markdown (I had a markdown in the beginning and switched to an `R` script so...

hi thanks again! the issue happens with `knit` in the Rstudio IDE and when running `rmarkdown::render()` from the commandline, but not when executing chunks in Rstudio or using `Rscript`. so...