In Seurat, how do you decide the cutoff for nFeature_RNA?
In Seurat, how do you decide the cutoff for nFeature_RNA? Sometimes, I see max at 2, 500, and sometimes, 4, 000.
seurat
r
scrna-seq
• 1,628 views
•
link
written
by
jvbeltran0122 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Seurat/Signac multiome analysis filtering on nCounts instead of nFeatures
written by yura.grabovska •I'm fairly OK with working with gene expression data in Seurat, but it's been a while since I've done anything with Signac and ATAC/multiome single-cell …
-
Seurat V5 integration
written by starswillfade •Hello. I have two seurat objects. One is the infected sample and the second is the uninfected. Here is the code: ```r merged_dat <- list(inf,uninf) …
-
How to select nFeature parameter in Seurat
written by jinghuang800 •Hi everyone, I'm beginning in bioinformatics and I'm working on a seurat project now. I noticed that in Seurat tutorial, they use `subset = nFeature_RNA …
-
Qualitative Comparison of 2 scRNAseq analyses
written by ConfusedSheep •I know I am not the brightest in this topic, but I believe this question should not be that stupid. Is there (generally speaking) a …
-
QC metrics for each dataset in Seurat for scRNA-seq
written by mvis1231Hi, I am new to bioinformatics and I have a few silly questions about how to define thresholds for QC metrics in Seurat. I noticed …
-
scRNA-seq and mitochondria DNA percentage
written by Morris_ChairHello everyone, This is the first time for me to analyze scRNA data, compared to the example in the workflow (Seurat), I notice that I …
-
Dual Y-axis in Seurat
written by vchandr7 •Can you create a scatter plot with a dual Y-axis for three features (nCount_RNA, nFeature_RNA, and percent.mt) in Seurat?
-
How can I get the ID reference genes in GEO ?
written by Lila MHi everybody, I'm trying to get some microarray data for GEO db. In [this example][1] , you can see that the ID reference is a …
-
Blast duration time (+500 000 seqs)
written by eme1309 •Hi! I am studying bioinformatics and actually am working on a validation project. We are using the command line version of blast. We created a …
-
Microarray Analysis Statistics Question
written by perpetualpeace1 •<p>Here's a (simplified) microarray analysis question. I could answer it by running permutations on the data, but I'm sure that there's an analytical method of …