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@adkinsrs
3 datasets (ScRNA-seq - P8, P12, P20 mouse cochlea (Michalski 2023; SnRNA-seq - P8 mouse cochleae (Michalski 2023; Mouse, scRNAseq,postnatal mouse utricle,raw matrix (Jan)) ), from the cu…
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I use the following command for big genome (wheat) scRNA-seq analysis:
PISA count -one-hit -@ 10 -cb CB -anno-tag GN -umi UB -outdir RawMatrix final.sorted.bam
An error occurred:
[error] [func: wri…
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This is a question about the .table file. I understand that LIGER integrates the scATAC and scRNA-seq. What exactly does this .table contain, and how can I generate it from other pipelines (Seruat, sc…
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Dear all,
What is the corresponding table in case of mouse genome in this command?
genes.df = read.table("gencode.v19.annotation.gene.bed");
Thanks
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Hi,
I have two questions:
1. I have a scRNA-seq dataset with 3 batches and I want to simulate a spatial dataset preserving the batch effect, is it better to simulate each batch separately or direc…
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Dear Saeyslab team,
Thank you for creating the great package!
I have been following the vignettes for analysis of scRNA-seq data of mouse embryonic tissues. I am mostly interested in differenti…
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Hello. Thank you for this package. I'm doing an integration analysis using more than 40 scATAC samples. However, I do not have scRNA data from the same cells. I tried doing the label transfer using th…
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Hi, I wanted to first and foremost express my appreciation for this fantastic package!
I am trying to apply the TF activity inference functions on my 10X scRNA-seq data. For reference, my dataset …
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To prepare scRNA-seq data for BAF analysis, xcltk is used. However, xcltk current does not support mm10 mouse scRNA-seq data at the baf_pre_phase.sh step, as it only permits usage of a Sanger-phasing …
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### Project short name:
MyocardialInfarctionAmruteCITE
### Primary Wrangler:
Ida
### Secondary Wrangler:
### Associated files
* Google Drive: [folder](https://drive.google.com/drive/folders/12Lw3o…