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Recent Replies
Comment: Snakemake and STARsolo
by
wanaga3166
•
0
Thank you, that the problems, I don't know the output for Starsolo. I think I will have 6 files:
- Log
- Feature Statistic Summaries
…
Comment: Snakemake and STARsolo
by
wanaga3166
•
0
I used this command line.
snakemake --cluster "qsub -N STAR_scRNA -l hostname=Node1 -b y" -s Snakefile4 -j 8 -n -p
> Also, what is…
Comment: How to extract translated sequence of a partcular gene by parsing GenBank file
by
Dunois
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770
You're going to have to share a couple of additional details with us if what you want is a "solution":
- Is this the only `GenBank` record …
Comment: How to extract translated sequence of a partcular gene by parsing GenBank file
by
tanusharma547
•
0
I need the solution urgently. If you can help me out, then, please help...
Comment: T-test analysis for gene expression comparison
by
Nithya Rangasamy
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10
A statistical student's t-test to compare gene expression levels between normal and mutation tissue samples.
Comment: SingleR for integrated scRNA-seq analysis
by
FantasticAI
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30
Sorry for the silly question, what do you mean by log2 expression value? take log2 of data slot under the RNA assay? or the counts slot und…
Comment: SingleR for integrated scRNA-seq analysis
by
igor
12k
SingleR expects the normalized counts, so you want the `data` slot.
Comment: collapsing coordinate information from a blast result
by
cpad0112
15k
Ff there is a way to collect the coordinates for each match in bed format from the blastn result
1. We can collapse the bed to non-overlap…
Answer: RNA seq V2 mRNA calculation information from cBioportal
by
Kevin Blighe
73k
This is now in their FAQ: https://docs.cbioportal.org/1.-general/faq#how-is-tcga-rnaseqv2-processed-what-units-are-used
> **How is TCGA …
Answer: RNA Seq V2 RSEM Data
by
Kevin Blighe
73k
This is now in their FAQ: https://docs.cbioportal.org/1.-general/faq#how-is-tcga-rnaseqv2-processed-what-units-are-used
> **How is TCGA …
Comment: Single cell analysis
by
Kevin Blighe
73k
Hi, that is not single-cell data. That is bulk RNA-seq via RSEM. Please read the FAQ at cBioPortal:
https://docs.cbioportal.org/1.-general/…
Comment: How to change color of rownames display in pheatmap
by
ladypurrsia
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40
Thank-you for this great example; however, after running this code, I noticed that after running the code `e=pheatmap(data[, 1:10])`, that …
Comment: SingleR for integrated scRNA-seq analysis
by
FantasticAI
▴
30
Under RNA assay, there are two slots, one is data, one is counts, which one should be used as SingleR input? I guess the counts slot is the…
Comment: Single cell analysis
by
najioumayma
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10
![ the one that i selected here in the screen is the dataset that i want to use for the analysis ][1]
[1]: /media/images/e33cef92-adff-…
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