Showing : gtex • reset
1
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3
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1.5k
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2 recount GTEx TCGA recount3
updated 19 months ago by ★ 4.6k • written 19 months ago by ▴ 20
2
votes
2
replies
2.5k
views
Create TPM gene tables/dataframe from ReCount3
recount3 TCGA GTEx DESeq2
2.5 years ago David ▴ 20
2
votes
2
replies
1.5k
views
Gene Selection GTex for DESeq2 Analysis
DESeq2 GTEx
3.8 years ago Bine ▴ 50
0
votes
1
reply
3.7k
views
Is GTEx age and sex data available via the recount package?
recount gtex
updated 6.2 years ago by ★ 1.1k • written 6.2 years ago by • 0
2
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2
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1.3k
views
Error in ebayes in limma when analyzing GTEx data
limma voom gtex
6.7 years ago mico • 0
1
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2
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2.0k
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DESeq2 for differential gene expression on GTEx dataset
rnaseq deseq2 gtex
updated 7.1 years ago by 43k • written 7.1 years ago by • 0
2
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0
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4.3k
views
Tutorial: BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data TCGA GTEx Tutorial
7.4 years ago shepherl 4.1k
7 results • Page 1 of 1
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Replies
Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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