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GDCprepare
•
reset
4
votes
5
replies
2.5k
views
GDCprepare - error
TCGABiolinks
GDCprepare
4.9 years ago
vm
▴ 30
2
votes
2
replies
1.5k
views
TCGAbiolinks GDCprepare error
TCGAbiolinks
GDCprepare
error
updated 4.9 years ago by
Tiago C. Silva
▴ 270 • written 4.9 years ago by
Talip Zengin
▴ 10
1
vote
5
replies
1.6k
views
Issue with TCGAbiolinks package.
TCGA
GDCprepare
5.3 years ago
salvocomplicazioni1
• 0
0
votes
2
replies
3.7k
views
Extract gene expression values from GDCprepare object
tcgabiolinks
tcga
tcgadownload
gdcprepare
gdc
updated 7.2 years ago by
Tiago Chedraoui Silva
▴ 260 • written 7.3 years ago by
enigmargs
• 0
0
votes
3
replies
1.4k
views
TCGA controlled data
R
tcgabiolinks
gdcprepare
7.0 years ago
ugandhar.ch1
• 0
0
votes
1
reply
1.6k
views
How to get treatment information with TCGAbiolinks?
gdcprepare
tcgabiolinks
treatment_type
R
data extraction
updated 6.9 years ago by
Dario Strbenac
★ 1.5k • written 6.9 years ago by
newbie
• 0
0
votes
0
replies
848
views
Reasoning for illegal operation
tcgabiolinks
illegaloperation
gdcprepare
6.4 years ago
lisa8191
• 0
0
votes
2
replies
1.9k
views
GDCprepare stop working for some unknown reason
tcgabiolinks
gdcprepare
updated 5.4 years ago by
James W. MacDonald
66k • written 5.4 years ago by
ansari.sarabio
• 0
0
votes
0
replies
1.4k
views
GDCprepare error in TCGAbiolinks
tcgabiolinks
gdcprepare
differential expression
4.6 years ago
fawazfebin
▴ 60
0
votes
0
replies
745
views
Error in GDCDownload and GDCPrepare for TCGA-PAAD Dataset
GDCPrepare
GDCDownload
20 months ago
Manav
• 0
0
votes
1
reply
1.2k
views
Error during GDCprepare
tcgabiolinks
gdcprepare
updated 7.7 years ago by
Tiago C. Silva
▴ 270 • written 7.7 years ago by
Mariana Boroni
▴ 10
0
votes
8
replies
2.6k
views
TCGAbiolinks GDCprepare fails to connect to Biomart web server
tcgabiolinks
gdcprepare
7.7 years ago • updated 7.6 years ago
sabarinath.chandrasekharan
▴ 10
12 results • Page
1 of 1
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Replies
Comment: Ensembl plants at annotationHub?
by
Johannes Rainer
★ 2.0k
You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…
Comment: Errors in chromosome annotation-biomaRt
by
blackwidowzzz
• 0
I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …
Answer: Errors in chromosome annotation-biomaRt
by
James W. MacDonald
66k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat
by
James W. MacDonald
66k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons
by
James W. MacDonald
66k
In that case, probably easiest to subset to the groups being compared.
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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