Hi Tiago,
On 9/16/19 06:35, Tiago Lubiana Alves wrote:
> Hello Mike,
>
> Thank you for the detailed explanation.
>
> You are right, for the vignette, I can download it from the ExperimentHub
> subset the pbmc3k dataset in the first few lines. The main point of having
> a new dataset was to use i
Hi Tiago,
The following will create a similarly sized subset of the PBMC3k
dataset with the counts in-memory as a sparse matrix:
pbmc3k <- TENxPBMCData::TENxPBMCData("pbmc3k")
mini_pbmc3k <- pbmc3k[1:1700, 1:600]
assay(mini_pbmc3k) <- as(assay(mini_pbmc3k), "dgCMatrix")
Cheers,
Pete
On Mon, 16
Hello Mike,
Thank you for the detailed explanation.
You are right, for the vignette, I can download it from the ExperimentHub
subset the pbmc3k dataset in the first few lines. The main point of having
a new dataset was to use it in the examples of functions. The full dataset
is too big and the ex
Hi Tiago,
I suspect what has happened here is that when create the mini_pbmc3k
object, you're doing this by subsetting the PBMC, 3k scRNA-seq data from
ExperimenHub. The assay data for that are are actually stored in an HDF5
file which will be downloaded and stored in your ExperimentHub cache on
y
Hello,
I am having a problem with a package submission build.
This is the package issue:
https://github.com/Bioconductor/Contributions/issues/1241
And this is the ERROR:
HDF5-DIAG: Error detected in HDF5 (1.10.5) thread 0:
#000: C:/hdf5_build/CMake-hdf5-1.10.5/hdf5-1.10.5/src/H5F.c line 509
in
