Showing : recount2 • reset
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Does DESeq2 need "scale_counts" for GTEx and TCGA data from recount2 (TCGAquery_recount2)?
TCGAbiolinks RECOUNT2 DESeq2
updated 16 months ago by 37k • written 16 months ago by ▴ 40
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2
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Recount2 Bigwigs for TCGA
R TCGA recount2 recount
updated 2.4 years ago by ▴ 1000 • written 2.4 years ago by • 0
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4
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808
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What assays are distributed with Recount TX data
recount recount2 RangedSummarizedExperiment
updated 3.0 years ago by ▴ 1000 • written 3.8 years ago by ▴ 120
3 results • Page 1 of 1
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Comment: DEXseq error unable to find an inherited method for function NSBS for signature by ta_awwad ▴ 10
Hi there, did you manage to solve this problem? thanks TA
Comment: Error in Create switchAnalyzeRlist by k.vitting.seerup ▴ 120
I just double checked and the fasta files found [here][1] should work. Please also take a look at [this][2] if you want to use Ensembl. …
Answer: Correlation between two different datasets: between results of RNAseq and absenc by Michael Love 37k
Re: LFC, if you are working with this and then downstream analysis, I'd recommend `lfcShrink` if you aren't already using this. It will shr…
Answer: Strange Dispersion plot by Michael Love 37k
This indeed looks strange, I would immediately suspect some weird batch effects. Try all kinds of diagnostic plots like, boxplot, PCA, corr…
Answer: Correlation between CpG methylation and gene expression from DESeq2-> Normalizat by Michael Love 37k
In this case, can you say why you want to normalize for gene length? In our tximport/tximeta pipeline, it would correct for differential ge…
Votes
Answer: Error in Create switchAnalyzeRlist
Answer: Error in Create switchAnalyzeRlist
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
Answer: the difference between getGEO and getGEOSuppFiles
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