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GDCDownload
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Why 3 RNA-seq bams for same sample/aliquot_barcode?
manifest
GDCdownload
GenomicDataCommons
16 months ago
xiaofeiwang198266
• 0
0
votes
0
replies
994
views
Error in GDCDownload and GDCPrepare for TCGA-PAAD Dataset
GDCPrepare
GDCDownload
2.2 years ago
Manav
• 0
1
vote
1
reply
1.1k
views
Problem downloading TCGA projects with the method "client"
bioconductor
GDCdownload
4.7 years ago
sann
• 0
0
votes
0
replies
1.1k
views
GDC RNA seq files (replicates?)
gdc data
TCGA
gdcdownload
5.9 years ago
coyoung
▴ 10
0
votes
0
replies
1.1k
views
Error in move(i, file.path(path, i)) : I could not find the file: 95a5d709-7454-4f76-84b0-a505c32baeb5 ; GDCdownload error
tcgabiolinks
gdcdownload
tcga-brca
6.9 years ago
fawazfebin
▴ 60
3
votes
5
replies
2.4k
views
GDCdownload error in TCGAbiolinks: Invalid zip name argument
tcgabiolinks
gdcdownload
unzip
updated 6.9 years ago by
Tiago Chedraoui Silva
▴ 260 • written 6.9 years ago by
fawazfebin
▴ 60
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Comment: What type of counts data to import for performing Isoform analysis in edgeR
by
ATpoint
★ 4.5k
Probably nf-core did not run with bootstrap/gibbs replicates. Check the code. See salmon docs on how to turn that on.
Comment: What type of counts data to import for performing Isoform analysis in edgeR
by
mohammedtoufiq91
▴ 10
@atpoint Thank you. I did wanted to try using the `quant.sf` files from the `salmon` run by referring edgeR user guide example `4.6 Differe…
Comment: athPkgBuilder data source :missing probesets
by
bobihanigujjar
• 0
In this article, we'll explore the demand for unbranded BJJ Gis and the benefits of choosing unbranded Gis for customization. [does anyone …
Comment: Crossover design with limma
by
SamGG
▴ 360
IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…
Answer: What type of counts data to import for performing Isoform analysis in edgeR
by
ATpoint
★ 4.5k
You don't need any of these files. You need the `catchSalmon` function which reads `quant.sf` and the inferential (Bootstrap/Gibbs) replica…
Votes
Comment: ANOVA like approach of edgeR
Comment: Crossover design with limma
Answer: DESeq2 normalization vs VST vs rlog
Comment: makeContrastsDream for Interaction
Answer: Limma- Print-tip loess normalisation-printer layout information does not match M
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