best pipeline for Paired scATAC-seq and scRNA-seq in the same cell - bioinformatics pipelines
Hi, anyone doing paired ScATAC-seq and scRNA-seq in the same cell.
scrna-seq
datapipelines
scatac-seq
• 1,207 views
•
link
updated
by
jared.andrews07
1.9K
• |
written
by
Naveed Khan
0
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Integrating and annotating multiple samples of single cell ATAC data
written by AB 39Hi, I have paired single cell RNASeq and single cell ATAC data. They are not multiomic. I'm trying to integrate and annotate my scRNA and …
-
Integrate several multiome objects
written by Sky 1I have scRNA-seq and scATAC-seq for two conditions (a control and stimulus). I have been trying to find a good tutorial but all I can …
-
Splitting scRNA seq data from Multiome data(scRNA+ scATAC)
written by gradstudent 0Could anyone help me with splitting the scRNA seq data from a Multiome dataset (scATAC + snRNA seq). I'm trying to create a separate anndata …
-
Kallisto bustools for scRNA-seq
written by t.ru 2Hi, I followed several tutorials about single cell rna-seq analysis for paired end. However, I need to quantify single ends scRNA-seq dataset. I have used …
-
scATAC-seq and scRNA-seq integration issue
written by inayat45shaikh 4Hi All, I have scATAC-seq and scRNA-seq multi-OMICs dataset and I am trying to do integration analysis with the tutorial using vignette https://satijalab.org/seurat/articles/atacseq_integration_vignette.html But at …
-
Single-cell gene expression & chromatin accessibility integration?
written by tenderness.sunshine 0If my scRNA-seq & scATAC-seq are carried out on **different cells** (they're from same tissues), what's a better method to integrate these two data?
-
Constructing GRNs from multimodal data?
written by kgoss 1Hello all, I have a multimodal single cell dataset consisting of scRNA-seq and scATAC-seq. I'm wanting to construct gene regulatory networks, and was looking into …
-
Multiome analysis: MAESTRO or Cell Ranger ACR
written by enh 0Hi everyone, have any of you used MAESTRO or 10x cell Ranger ACR for the analysis of the scATAC-seq and scRNA-seq? What is your take? …
-
Data integration tools for multi-omics sequencing data
written by marina.v.yurieva 58I was wondering what are the best tools used for sequencing data integration? What I have is multiple bulk RNA-seq, scRNA-seq, ATAC-seq, scATAC-seq, Hi-C and …
-
scATAC-seq analysis, data preprocessing
written by chipolino 15Hi, During scATAC-seq data preprocessing, does it make sense to filter data matrix, so it contains only most variable peaks (in the same way how …
This isn't really a question. There exist multiple frameworks for paired multi-modal single cell assays, like Signac/Seurat, ArchR, scanpy/snapatac2/pycistopic, etc. You should try to determine what information you're actually looking to get and formulate it as a detailed question.