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Experiment Type:
RNA-Seq
Sequencing of total cellular RNA
Workflow Management:
Bash/SLURM
Scripting and job scheduling
Software Stack:
FastQC
MultiQC
STAR
RSEM
samtools
DESeq2
What …
-
Experiment Type:
RNA-Seq
Sequencing of total cellular RNA
Workflow Management:
Bash/SLURM
Scripting and job scheduling
Software Stack:
FastQC
MultiQC
STAR
RSEM
samtools
DESeq2
What …
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Hi,
I want to use ABIS for deconvolution of the RNA-Seq profiles generated from the whole blood ( only RBCs are removed by RBC lysis buffer) remaining all cells are their. I have run premilinary ana…
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Hi,
Just wanted to check the normalisation of some of the output files. From the output documentation:
"The number of reads aligned to the spike-in genome are then used to calculate a scaling fac…
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Hey,
Wanted to run this pipeline with comparable combinatorial barcoding snRNA-seq (Sci-RNA-Seq3) but realized an input file is missing.
Script: Section_1_processing.R - line 17:
"mouse_gene…
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Currently, the visualization part of the pipeline works in a very generic manner and does not attempt to stylize data points based on available metadata.
It may be desirable, however, to allow user's…
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Hello,
Can we used velocyto to analysis bulk RNA seq data. We want used this wonderful methods to do the same analysis juts like the smart-seq2 pipeline you have showed us, because we just want to…
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Hello Developers,
I predicted the plant genome and obtained about 48,000 and 70,000 genes using braker and funannotation pipeline RNA-seq and protein, respectively. Other people did another genome …
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Hello!
I've been having issues adapting bulk rna seq data into cellchats pipeline. I want to compare the bulk rna sequencing reads of three purified celltypes with one purified celltype, and find w…
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Hi,
I am currently trying to run Taiji on a set of WT and KO RNAseq and ATACseq data. To not mess with previous analyses I decided to use the already existing gene quantification, which I did with …