Showing : NanoString • reset
24
votes
12
replies
13k
views
Nanostring analysis with limma
nanostring limma
updated 9.9 years ago by ▴ 20 • written 9.9 years ago by ▴ 370
16
votes
40
replies
11k
views
Can NanoString data be analyzed using DESeq2?
NanoString Differential Expressed Genes Analysis DESeq2
updated 3.2 years ago by ▴ 10 • written 5.6 years ago by ▴ 50
9
votes
13
replies
6.6k
views
DESeq2 on NanoString Data
deseq2 nanostring
updated 6.8 years ago by 43k • written 6.8 years ago by ▴ 170
3
votes
8
replies
3.9k
views
Using DESeq2 with Nanostring data (for VST only)
deseq2 variancestabilizingtransformation nanostring
updated 7.9 years ago by 43k • written 7.9 years ago by ▴ 10
3
votes
6
replies
2.3k
views
Why NanoStringDiff package so slow?
NanoStringDiff NanoString nCounter DE analysis
updated 16 months ago by • 0 • written 5.6 years ago by ▴ 50
2
votes
3
replies
2.2k
views
Housekeeping genes vary across contrast groups, using DESeq2 on NanoString data
NanoNormIter DifferentialExpression Housekeeping DESeq2 NanoString
updated 3.1 years ago by 43k • written 3.1 years ago by • 0
2
votes
0
replies
2.1k
views
NanoString Data Normalization Revisited
nanostring normalization
9.5 years ago alakatos ▴ 130
1
vote
6
replies
2.4k
views
How to access normalized data in the NanoStringDiff package?
nanostringdiff nanostring NanoStringDiff
updated 6.8 years ago by 68k • written 6.8 years ago by ▴ 170
1
vote
1
reply
1.8k
views
GSVA with NanoString nCounter data
GSVA Nanostring
6.7 years ago • updated 6.0 years ago SB • 0
1
vote
5
replies
2.3k
views
how to plot multiple RLEs on same plot?
plotRLE Nanostring RUVSeq DESEQ2
updated 7 months ago by ▴ 70 • written 3.7 years ago by ▴ 50
1
vote
1
reply
1.3k
views
DESeq2 confounding cartridge
deseq2 confounders nanostring rnaseq differential gene expression
updated 7.0 years ago by 43k • written 7.0 years ago by • 0
0
votes
1
reply
2.0k
views
Application of RUV to a small Nanostring dataset
RUV Nanostring RUV-III
updated 4.9 years ago by ▴ 20 • written 5.6 years ago by ▴ 30
0
votes
4
replies
1.3k
views
Setting up contrasts with 'limma', patient data, small number of repeats
limma nanostring contrasts
updated 5.5 years ago by 52k • written 5.5 years ago by • 0
0
votes
9
replies
1.9k
views
DESeq2 with nanostring data
deseq2 nanostring
5.2 years ago acs1990 ▴ 10
0
votes
3
replies
2.9k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 2.7 years ago by 68k • written 2.7 years ago by • 0
0
votes
0
replies
1.6k
views
design matrix and contrast for paired experiment using NanoStringDiff for nCounter data
nanostring NanoStringDiff design and contrast matrix differential gene expression ncounter
7.7 years ago c.kohler • 0
0
votes
5
replies
1.6k
views
NanoStringDiff analysis with confounding factors
differential gene expression nanostring confounding factors
updated 6.2 years ago by 68k • written 6.2 years ago by • 0
0
votes
0
replies
1.2k
views
Trying to use a NanoString expression set with batch effects to do GSVA
GSVA Normalization BatchEffect GSVAdata NanoString
2.2 years ago Zhijie • 0
18 results • Page 1 of 1
Recent ...
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Answer: Use of org.Rn.eg.db with GRCr8 reference genome by James W. MacDonald 68k
You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…
Comment: DESeq2 swap ensembl gene id rownames with gene symbol column by Erika • 0
Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
Answer: Clarification on GOALL / GO2ALLORFs mapping by James W. MacDonald 68k
It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question? by DavideSant • 0
Thank you, this was super useful!
Comment: Error in retrieving clinical data by silickas • 0
Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…
Votes
Comment: Can't post a question?
Answer: Limma - Complex 2-way multi-level contrast with paired samples
Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
Answer: Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malf
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