Showing : microarray • reset
32
votes
0
replies
42k
views
limma moderated t-statistics and B-statistics
Microarray limma
20.5 years ago • updated 4.4 years ago Gordon Smyth 52k
2
votes
5
replies
31k
views
Row labels in a heatmap
Microarray Microarray
updated 12.7 years ago by 68k • written 12.7 years ago by ▴ 60
0
votes
2
replies
25k
views
Installing EnhancedVolcano package in R
microarray software error
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by • 0
0
votes
0
replies
19k
views
1000 R tutorials/Links
Sequencing Microarray Genetics Visualization Network Bayesian Classification Clustering
14.8 years ago David Lyon ▴ 340
0
votes
10
replies
18k
views
Fine tuning heatmap.2 graphics
Microarray Microarray
updated 19.0 years ago by ▴ 290 • written 19.0 years ago by ▴ 70
7
votes
1
reply
16k
views
ERROR: No residual degrees of freedom in linear model fits
Microarray
updated 2.1 years ago by • 0 • written 10.9 years ago by ▴ 40
0
votes
7
replies
16k
views
How to adjust the Heatmap.2 color key
Microarray GeneSpring Microarray GeneSpring
16.7 years ago Martin Bonke ▴ 40
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray Regression limma Microarray Regression limma
updated 11.1 years ago by 68k • written 11.1 years ago by ▴ 380
1
vote
12
replies
13k
views
Using limma for quantitative proteomics data
Microarray Proteomics limma Microarray Proteomics limma
12.7 years ago Yong Li ▴ 80
0
votes
6
replies
13k
views
Package version of Bioconductor cannot be unloaded, Error in unloadNamespace(package),help!!
microarray software error hgu133plus2.db
updated 5.9 years ago by 25k • written 5.9 years ago by • 0
28
votes
8
replies
13k
views
Removing continuous covariate effects in limma analysis
limma microarray
updated 7.5 years ago by 52k • written 10.0 years ago by ▴ 160
5
votes
2
replies
12k
views
lowess vs. loess
Microarray Normalization
updated 8.8 years ago by 52k • written 21.6 years ago by ▴ 30
4
votes
8
replies
12k
views
how to use idat file for analyses in bioconductor
microarray illumina idat
updated 9.1 years ago by 52k • written 9.1 years ago by ▴ 10
6
votes
1
reply
12k
views
How to combine multiple probes representing a single gene?
microarray affy eset
updated 8.1 years ago by 52k • written 8.1 years ago by ▴ 20
17
votes
8
replies
11k
views
remove microarray batch effects using Limma
Microarray
updated 8 months ago by 52k • written 14.4 years ago by ▴ 120
0
votes
2
replies
10k
views
problems with "cannot allocate vector of size.."
Microarray gcrma Microarray gcrma
updated 13.1 years ago by ★ 13k • written 13.1 years ago by ▴ 70
5
votes
8
replies
10k
views
Limma design with continuous and categorical covariates
limma batch effect covariates microarray
updated 10 months ago by • 0 • written 8.6 years ago by ▴ 30
8
votes
15
replies
9.9k
views
Design matrix for continuous independent variable in limma
limma microarray
9.2 years ago Linda Chaba ▴ 10
0
votes
0
replies
9.5k
views
virtualArray vignette does not work: 'data' must be of a vector type, was 'NULL'
Microarray Annotation Preprocessing hgu133plus2 hgug4112a virtualArray Microarray hgug4112a
10.8 years ago Guest User ★ 13k
1
vote
7
replies
9.3k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 3.0 years ago by • 0 • written 6.2 years ago by ▴ 10
0
votes
4
replies
9.2k
views
Agilent 2-color Microarray data analysis tutorial
Microarray Visualization Clustering Microarray Visualization Clustering
updated 15.2 years ago by 25k • written 15.2 years ago by ▴ 140
13
votes
9
replies
9.0k
views
Appropriate use of the function treat of the limma package
limma treat microarray bioconductor
10.0 years ago svlachavas ▴ 840
2
votes
2
replies
8.9k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 9.1 years ago by ▴ 760 • written 9.1 years ago by • 0
0
votes
2
replies
8.4k
views
heatmap.2 function and the scale option
Microarray Clustering Microarray Clustering
updated 13.5 years ago by ▴ 80 • written 13.5 years ago by ▴ 560
3
votes
2
replies
8.0k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 2.3 years ago by ▴ 200 • written 7.3 years ago by • 0
0
votes
4
replies
7.6k
views
Limma Volcano Plot Highlight Top Genes by Color
limma microarray volcanoplot color
updated 6.4 years ago by 52k • written 6.4 years ago by • 0
0
votes
3
replies
7.3k
views
Error in function (classes, fdef, mtable): unable to find an inherited method for function "indexProbes", for signature "exprSet", "character"
Microarray Normalization Microarray Normalization
updated 17.0 years ago by ★ 13k • written 17.0 years ago by ▴ 20
3
votes
2
replies
7.2k
views
error with accessing GEOquery data
Microarray Microarray
updated 15.5 years ago by 21k • written 15.5 years ago by ▴ 340
0
votes
7
replies
7.1k
views
Annotating HTA 2.0 genes
microarray
10.3 years ago statistuta • 0
0
votes
18
replies
7.1k
views
WGCNA error in network construction ?
microarray rnaseq
8.0 years ago m.azhar ▴ 10
0
votes
1
reply
7.0k
views
plotting 3d image of pca analysis
Microarray Microarray
updated 14.8 years ago by ▴ 430 • written 14.8 years ago by ▴ 40
9
votes
4
replies
7.0k
views
Limma: Paired samples, multiple groups: problems understanding contrasts and model.matrix
microarray limma design and contrast matrix
8.0 years ago Anna ▴ 50
2
votes
10
replies
6.9k
views
Probeset ID's to entrez for Clariom D Human Affy Array
microarray affy
updated 8.5 years ago by 68k • written 8.5 years ago by • 0
0
votes
2
replies
6.8k
views
gplots Heatmap
SNP Transcription Sequencing RNASeq miRNA Microarray Annotation Normalization GO Cancer
updated 13.1 years ago by ★ 13k • written 13.1 years ago by ▴ 10
0
votes
12
replies
6.8k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
12.1 years ago James W. MacDonald 68k
1
vote
2
replies
6.7k
views
explanation of makeContrasts function of limma package
limma microarray R geneexpression
updated 9.6 years ago by ★ 28k • written 9.6 years ago by ▴ 10
2
votes
4
replies
6.5k
views
T-test for microarray data
limma microarray t.test
updated 10.0 years ago by 25k • written 10.0 years ago by • 0
0
votes
3
replies
6.1k
views
median normalization
Microarray Normalization Microarray Normalization
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 580
0
votes
2
replies
6.1k
views
How to read bgx files in R
microarray annotation illumina
9.7 years ago kanacska ▴ 10
4
votes
14
replies
6.1k
views
Including technical and biological replicates in Limma block analysis?
limma microarray block paired linear model
10.3 years ago vas ▴ 40
0
votes
3
replies
5.8k
views
limma design and contrast matrix for paired experiment
Microarray limma edgeR Microarray limma edgeR
12.2 years ago Gordon Smyth 52k
0
votes
2
replies
5.8k
views
microarray: dealing with multi probes for one gene
Microarray limma Microarray limma
updated 17.8 years ago by ★ 1.3k • written 17.8 years ago by ▴ 10
6
votes
6
replies
5.8k
views
Finding enriched pathways from a gene list.
microarray limma kegg ENTREZ enrichment analysis
updated 5.1 years ago by 52k • written 5.1 years ago by ▴ 50
5
votes
11
replies
5.8k
views
Duplicate gene ID's returned from limma microarray analysis
limma microarray
updated 2.9 years ago by 52k • written 8.2 years ago by ▴ 80
0
votes
2
replies
5.8k
views
sva + voom + limma
RNASeq Microarray sva RNASeq Microarray sva
updated 11.5 years ago by 52k • written 11.5 years ago by ▴ 120
7
votes
8
replies
5.6k
views
Model matrix for anova in limma
limma design matrix microarray limma
updated 9.1 years ago by ★ 13k • written 9.3 years ago by ▴ 60
8
votes
10
replies
5.5k
views
Interpretation of confidence interval values for logFC returned from topTable function in limma with microarray dataset
limma topTable confidence interval effect size microarray
updated 9.0 years ago by 52k • written 9.0 years ago by ▴ 80
9
votes
10
replies
5.5k
views
Simple significance test functions from R packages limma and plsgenomics
limma plsgenomics microarray differential gene expression
updated 10.2 years ago by 52k • written 10.2 years ago by ▴ 10
0
votes
2
replies
5.4k
views
Packages not getting installed
Microarray GO annotate Microarray GO annotate
updated 15.9 years ago by 68k • written 15.9 years ago by ▴ 90
1
vote
12
replies
5.3k
views
EdgeR: replicated pools, yes or not?
RNASeq Microarray edgeR RNASeq Microarray edgeR
updated 10.9 years ago by ★ 7.9k • written 10.9 years ago by ★ 13k
50 results • Page 1 of 1
Recent ...
Replies
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
Awards • All
Popular Question to igor ▴ 50
Popular Question to xiaofeiwang198266 • 0
Scholar to shepherl 4.1k
Popular Question to James W. MacDonald 68k
Popular Question to Gordon Smyth 52k
Locations • All
Iran, 8 minutes ago
United States, 2 hours ago
UPF, Barcelona, Spain, 3 hours ago
Japan, 4 hours ago
Uganda, 5 hours ago
Traffic: 826 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6