Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
0
votes
0
replies
1.1k
views
Comment: Comment: Low logFCs using MAST for scRNA-seq
4 weeks ago nhaus ▴ 70
0
votes
1
reply
484
views
Validity of SingleR with very small bulk RNAseq reference
SingleR
updated 8 weeks ago by ★ 4.4k • written 9 weeks ago by ▴ 70
0
votes
0
replies
278
views
Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
11 weeks ago nhaus ▴ 70
2
votes
1
reply
344
views
DESeq2 returns results for group with just one replicate
DESeq2 DifferentialExpression
updated 3 months ago by 67k • written 3 months ago by ▴ 70
0
votes
1
reply
860
views
Comment: Comment: How to correct for known and surrogate variables in DESeq2?
5 months ago nhaus ▴ 70
2
votes
1
reply
433
views
Answer: Answer: ComplexHeatmap: change the names of a HeatmapAnnotation object
5 months ago nhaus ▴ 70
0
votes
1
reply
764
views
Comment: Comment: Not fully paired differential gene expression analysis
5 months ago nhaus ▴ 70
0
votes
0
replies
688
views
Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 months ago nhaus ▴ 70
0
votes
1
reply
688
views
Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 months ago nhaus ▴ 70
0
votes
1
reply
688
views
Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 months ago nhaus ▴ 70
3
votes
6
replies
688
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq sva
5 months ago nhaus ▴ 70
0
votes
2
replies
764
views
Comment: Comment: Not fully paired differential gene expression analysis
5 months ago nhaus ▴ 70
0
votes
2
replies
429
views
Interaction term vs grouping variable design considerations
DESeq2 DifferentialExpression
updated 5 months ago by 42k • written 5 months ago by ▴ 70
5
votes
6
replies
764
views
Not fully paired differential gene expression analysis
edgeR DifferentialExpression
updated 5 months ago by ★ 4.4k • written 5 months ago by ▴ 70
0
votes
1
reply
756
views
Comment: Comment: locateVariant from VariantAnnotation returns wrong results
10 months ago nhaus ▴ 70
0
votes
1
reply
756
views
Comment: Comment: locateVariant from VariantAnnotation returns wrong results
10 months ago nhaus ▴ 70
0
votes
5
replies
756
views
locateVariant from VariantAnnotation returns wrong results
VariantAnnotation locateVariant
updated 10 months ago by 67k • written 10 months ago by ▴ 70
0
votes
3
replies
1.8k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 17 months ago by ▴ 70
1
vote
1
reply
891
views
Pseudobulk running all groups together vs subsetting first
DESeq2 edgeR SingleCell
updated 19 months ago by ★ 13k • written 19 months ago by ▴ 70
0
votes
1
reply
2.8k
views
Comment: Comment: Implementation of the "original" GSEA algorithm in R
21 months ago nhaus ▴ 70
0
votes
1
reply
724
views
GSA type of input data
GSEA GSA vst
updated 21 months ago by 42k • written 21 months ago by ▴ 70
7
votes
6
replies
2.8k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler GSEA fgsea
updated 21 months ago by 51k • written 21 months ago by ▴ 70
2
votes
1
reply
1.6k
views
removeBatchEffect: Coefficients not estimable when using "batch matrix" for `covariates` argument.
limma BatchEffect
updated 2.3 years ago by 51k • written 2.3 years ago by ▴ 70
2
votes
3
replies
2.0k
views
Get MANE transcripts from TxDb.Hsapiens.UCSC.hg38.knownGene
AnnotationDbi
updated 13 months ago by 67k • written 2.4 years ago by ▴ 70
0
votes
0
replies
2.3k
views
Comment: Comment: Get corresponding gene id for probe id from Affymetrix array
2.4 years ago nhaus ▴ 70
0
votes
1
reply
2.3k
views
Comment: Comment: Get corresponding gene id for probe id from Affymetrix array
2.4 years ago nhaus ▴ 70
2
votes
5
replies
2.3k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.4 years ago nhaus ▴ 70
0
votes
0
replies
643
views
Using geNetClassifier with RNA seq data
geNetClassifier Normalization
2.5 years ago nhaus ▴ 70
0
votes
1
reply
2.1k
views
Comment: Comment: AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is requi
2.5 years ago nhaus ▴ 70
0
votes
2
replies
2.1k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 2.5 years ago by 4.0k • written 2.5 years ago by ▴ 70
0
votes
1
reply
8.5k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.5 years ago nhaus ▴ 70
0
votes
1
reply
8.5k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.5 years ago nhaus ▴ 70
0
votes
1
reply
8.5k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.5 years ago nhaus ▴ 70
12
votes
13
replies
8.5k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 7 months ago by ★ 4.4k • written 2.5 years ago by ▴ 70
0
votes
1
reply
8.5k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.5 years ago nhaus ▴ 70
0
votes
0
replies
1.2k
views
Comment: Comment: Including squared covariates to account for non-linear dependencies in different
2.6 years ago nhaus ▴ 70
3
votes
3
replies
1.2k
views
Including squared covariates to account for non-linear dependencies in differential gene expression analysis
limma DifferentialExpression
2.6 years ago nhaus ▴ 70
1
vote
1
reply
1.4k
views
How to determine if limma can adjust for batch effect
BatchEffect limma sva DifferentialExpression
updated 2.6 years ago by ★ 4.4k • written 2.6 years ago by ▴ 70
0
votes
0
replies
2.0k
views
Comment: Comment: What to do if covariates in design matrix of limma are confounded
2.6 years ago nhaus ▴ 70
0
votes
2
replies
2.0k
views
Comment: Comment: What to do if covariates in design matrix of limma are confounded
2.6 years ago nhaus ▴ 70
4
votes
5
replies
2.0k
views
What to do if covariates in design matrix of limma are confounded
limma DifferentialExpression
updated 2.4 years ago by • 0 • written 2.6 years ago by ▴ 70
41 results • Page 1 of 1
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