May I run scRNA-seq data in Seurat without barcode file?
Hi!, I'm working with the dataset GSE121861, but its don't have a barcode file. May I run this data in Seurat without this file?. Thanks for the comments.
scrna-seq
• 1,084 views
•
link
updated
by
GenoMax
•
written
by
mogollon.garcia •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Remove reference sequence from multifasta file
written by FJCF •Hi everyone. I'm a complete beginner in this field and I'm having a hard time with something that looked very simple. I'm working with a …
-
How to convert single-cell RNAseq filename.mtx.gz to seurat object
written by Barani Kumar •Hi All, I need your great help with my public scRNAseq data obtained from GEO dataset analysis. For example, if I want to access this …
-
How to bring in Processed GEO Data ((scRNA-seq) into R and convert into Seurat Object for analysis ?
written by Vigorous •For my own project, I'm attempting to search through a published dataset to be used for analysis. I am a R/Seurat newbie so I'm quite …
-
Chromosome Path in Pairtools
written by Matteo Ungaro •Hi everyone, I'm trying to understand how to get *.chroms/chrom.sizes* file in order to run **pairtools parse** which I need to later perform scaffolding with …
-
How to transfer the cluster info(metadata) from seurat object to demultiplexed seurat object?
written by SoYeon.Kim •I have two seurat objects which are with and without Total seq tag (Hashtag) information. Basically those data have mostly same cells (same cell barcode) …
-
Spatial transcriptomics data
written by lsudupe •I just started working with seurat and I'm trying to read spatial transcriptomic data. Until now I work with .h5 files so I didn't have …
-
how to subset Seurat object by gene names
written by leranwangcs •Hi, I created an integrated seurat object. And I used SingleR to do the cell annotation and joined that information to the seurat object. I'm …
-
Not able to find barcode file for Spatial Transcriptomic data
written by Mahesh Rao •I am a student who's taking a course in computational genomics and I wanted to try [this][1] tutorial in Seurat for which I have to …
-
snakemake rule input from multiple directories and proceed them separatly
written by regue.hadrien •Hi there! I have a new problem with snakemake. There is mutiple directories containing fastq files: - DATASET/rep1/*.fastq - DATASET/rep2/*.fastq - DATASET/rep3/*.fastq I want to …
-
Allen Brain Institute measures
written by claudia.moroni •Hi, I'm a student working on a project about transcriptomics and for that, I'm using the dataset of the Allen Brain Institute (https://portal.brain-map.org/atlases-and-data/rnaseq ). I'm …
I don't know that anyone wants to download those files to see what's going on with them; you might get more of a response if you show the top few lines of ever file you've got.
File 1. Column data. Few lines:
File 2. Row data Few lines:
File 3. Expression data. It is the matrix with the expression values.