-
Dear CellScopes Team,
I encountered an error while running the subset_fov function for VisiumHD data using the following code:
`df = cs.subset_fov(hd, [89,109], 26, 20)`
Here is the error messa…
-
I have a quick question about the snRNA-seq data of CCRCC samples that were used in this study. I downloaded the data from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE240822, following the d…
-
![plot_zoom_png (1)](https://github.com/ablab/IsoQuant/assets/57286623/d9a249d8-fbb5-49a2-8a98-aa640f2da941)
Hi,
I tried running a task with a memory limit of 250GB, but it kept going over the l…
-
Hi,
I am using AmpBinner to demultiplex Nanopore sequencing data generated from the 10X V3 library.
The cell barcode assignment rate is approximately 20%. Do you know how to improve it?
Thanks!
-
> cat PUMATAC_tutorial-main/PUMATAC/src/singlecelltoolkit/processes/barcode_correction.nf
nextflow.enable.dsl=2
//binDir = !params.containsKey("test") ? "${workflow.projectDir}/src/singlecelltoolk…
-
### Please confirm if bug report does NOT exist already ?
- [X] I confirm there is no existing issue for this
### Steps to reproduce ?
When clicking on the "+" of a lookup field in the table or gri…
-
When I tried to run your software, I got tons of warnings, but I do not know why it happens:
`2023-10-22 22:23:04,235 - DEBUG - Counting for batch 24536, containing 100 cells and 183 reads
2023-10-2…
-
Hello,
Section 1.3 of the README reads:
> At this point, we get
> - a scRNA-seq count matrix from cellranger (1.1) with automated filtered cells based on cellranger cutoffs for detecting empty …
-
Hi, first, thank you for interesting tool to use in single cell
I have a question about SNV output(chr*.putativeSNVs.csv).
When I put input bam file, bam file have 8923 unique cell barcodes,
bu…
-
When I use "CITE-seq-Count-R1./ SRR13724311_S1_L001_R1_001.fastq.gz-R2 SRR13724311_S1_L001_R2_001.fastq.gz-t Cmca9_tag_list_utf8.cfa-cbf 1-cbl 16-umif 17-umil 28 -cells 10000-o OUTFOLDER "is always no…