-
May i ask 1 question:
if data is already pseudobulk object from scRNAseq data with logCPM value, how can i change it back to a seurat object with counts value? Can i still use above method to turn …
-
Hello,
I've used Seurat to analyse my scRNAseq data, which then I've converted into a Monocle CDS using SeuratWrappers to study the pseudotime trajectories by Monocle3b(v0.2.2.0). I have different co…
-
We have reports of potential new cell types in logs/new_CL_{table_name}.tsv
This ticket is intended for triage of papers for curation new cell types / papers.
The following table comes from repo…
-
```
Warning messages:
1: Can't find iSEE in webR binary repository.
2: Can't find scater in webR binary repository.
3: Can't find scRNAseq in webR binary repository.
4: Can't find curl in webR bi…
-
Hello,
I am interested in using this package, but wondering what is the minimal sample size that is required for RNAseq data?
Thanks!
-
Hi @drbecavin,
I am an active contributor to the [nf-core](https://nf-co.re/) project and have been working on the [scRNA-seq](https://github.com/nf-core/scrnaseq) and [spatialtranscriptomics](htt…
-
Hi,
This is more naive question as I do not have experience in SNPs.
I have 2 cell-lines scRNAseq data, combined sequenced. Now would like to separate using cellSNP (& vireo).
I got bulk RNA-se…
-
I receive a segfault when I try to run
/home/cdieterich/software/STARdevelop/STAR --runThreadN 10 --genomeDir ${INDEX} --genomeLoad NoSharedMemory --readFilesCommand zcat --readFilesPrefix ${fastq_di…
-
Hello,
I'm adding STARsolo to [nf-core/scrnaseq](https://github.com/nf-core/scrnaseq) and am realizing that there isn't support in MultiQC for the AlevinQC module. Would it be possible to "simply" em…
-
Hi, thank you for developing the ARACNe software. I'm using it to generate single cell network for a matrix of 15,000 cells and 20,000 genes and 800 transcription factors using the following command. …