Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
0
votes
1
reply
2.1k
views
Comment: Comment: How well does "Trinity-Differential-Expression" work on normalized raw counts wi
5.1 years ago ATpoint ★ 5.0k
1
vote
0
replies
3.1k
views
Comment: Comment: to extract the mRNA sequences of the canonical RefSeq genes
5.1 years ago ATpoint ★ 5.0k
1
vote
0
replies
5.2k
views
Comment: Comment: WHat is the difference between DEG and TopVarGenes in DESEq2?
5.1 years ago ATpoint ★ 5.0k
5
votes
1
reply
5.2k
views
Answer: Answer: WHat is the difference between DEG and TopVarGenes in DESEq2?
5.1 years ago ATpoint ★ 5.0k
5
votes
1
reply
5.4k
views
Answer: Comment: Normalise to a housekeeping gene in DESEq2
5.2 years ago ATpoint ★ 5.0k
1
vote
2
replies
1.9k
views
Comment: Comment: Different contrast coding strategies in DESeq2 produce slightly different output
5.2 years ago ATpoint ★ 5.0k
1
vote
1
reply
3.3k
views
Answer: Comment: Bioconductor install error
5.2 years ago ATpoint ★ 5.0k
0
votes
0
replies
1.5k
views
Comment: Comment: Analyzing publicly available DESeq2 normalized counts for differential expressio
5.2 years ago ATpoint ★ 5.0k
0
votes
0
replies
4.1k
views
Comment: Comment: Error in DESeqDataSet(se, design = design, ignoreRank) : counts matrix should be
5.2 years ago ATpoint ★ 5.0k
1
vote
1
reply
3.1k
views
Comment: Comment: HELP! Troubleshooting Installing EBImage Package
5.2 years ago ATpoint ★ 5.0k
0
votes
0
replies
1.7k
views
Comment: Comment: se does not inherit from class SummarizedExperiment
5.2 years ago ATpoint ★ 5.0k
1
vote
1
reply
2.3k
views
Comment: Comment: How to shortlist the unaffected gene list from DESeq2 results
5.2 years ago ATpoint ★ 5.0k
4
votes
3
replies
2.5k
views
catchSalmon for tx-level DE
catchSalmon edgeR
updated 2.2 years ago by 53k • written 5.3 years ago by ★ 5.0k
0
votes
1
reply
2.5k
views
Comment: Comment: catchSalmon for tx-level DE
5.3 years ago ATpoint ★ 5.0k
0
votes
1
reply
4.1k
views
Comment: C: DiffBind for ATACseq without replicates
5.3 years ago ATpoint ★ 5.0k
0
votes
2
replies
1.9k
views
edgeR for single-cell data with inferential replicates
edgeR alevin
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
2.0k
views
Comment: C: Correctly set contrast with DESeq2 for not full rank design matrix
5.3 years ago ATpoint ★ 5.0k
0
votes
1
reply
4.0k
views
Comment: C: csaw for ATAC, quantitation of Tn5 insertion sites only
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
1.9k
views
Comment: C: edgeR for single-cell data with inferential replicates
5.3 years ago ATpoint ★ 5.0k
1
vote
1
reply
1.8k
views
Comment: C: DESeq2::rlogTransformation missing rownames vs vst.
5.3 years ago ATpoint ★ 5.0k
4
votes
1
reply
22k
views
Comment: C: Contrasts in DESeq2
5.3 years ago ATpoint ★ 5.0k
1
vote
1
reply
22k
views
Comment: C: Contrasts in DESeq2
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
1.7k
views
Comment: C: DESeq2 # of up-and down-regulated genes are approximately equal
5.3 years ago ATpoint ★ 5.0k
1
vote
0
replies
1.3k
views
Answer: C: padj NA after shrinking log2FC (DESeq2)
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
979
views
Answer: C: Limma Design Matrix Missing Columns
5.3 years ago ATpoint ★ 5.0k
0
votes
1
reply
2.5k
views
Comment: C: RUVseq to remove a library size artefact in a zebrafish brain RNA-seq dataset
5.3 years ago ATpoint ★ 5.0k
0
votes
1
reply
2.5k
views
Comment: C: RUVseq to remove a library size artefact in a zebrafish brain RNA-seq dataset
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
3.4k
views
Comment: C: How to use GOseq without length bias
5.3 years ago ATpoint ★ 5.0k
0
votes
1
reply
3.4k
views
Comment: C: How to use GOseq without length bias
5.3 years ago ATpoint ★ 5.0k
0
votes
0
replies
1.5k
views
Comment: C: edgeR and batch effects
5.4 years ago ATpoint ★ 5.0k
1
vote
0
replies
1.5k
views
Comment: C: edgeR and batch effects
5.4 years ago ATpoint ★ 5.0k
2
votes
1
reply
1.8k
views
normOffsets in csaw
csaw
updated 5.4 years ago by ★ 29k • written 5.4 years ago by ★ 5.0k
2
votes
3
replies
1.7k
views
vst with output of edgeR::calcNormFactors
DESeq2
updated 3.2 years ago by 53k • written 5.4 years ago by ★ 5.0k
0
votes
0
replies
1.7k
views
Comment: C: vst with output of edgeR::calcNormFactors
5.4 years ago ATpoint ★ 5.0k
0
votes
0
replies
3.2k
views
Comment: C: Differential expression analysis of multiple RNA-seq datasets using DESeq2
5.4 years ago ATpoint ★ 5.0k
0
votes
0
replies
4.4k
views
Comment: C: CPM function in EDGER
5.4 years ago ATpoint ★ 5.0k
1
vote
1
reply
2.2k
views
Comment: C: Raw counts for reference dataset in single cell rnaseq
5.4 years ago ATpoint ★ 5.0k
0
votes
1
reply
7.4k
views
Comment: C: limma::removeBatchEffect into DESeq2
5.4 years ago ATpoint ★ 5.0k
0
votes
1
reply
3.9k
views
Comment: C: Cell cycle regression for scRNA-seq data
5.4 years ago ATpoint ★ 5.0k
3
votes
3
replies
3.9k
views
Cell cycle regression for scRNA-seq data
OSCA batchelor cell cycle regression
updated 5.4 years ago by ★ 29k • written 5.4 years ago by ★ 5.0k
0
votes
1
reply
5.0k
views
Comment: C: Is Limma's removeBatchEffect() and log2() commutative?
5.5 years ago ATpoint ★ 5.0k
5
votes
1
reply
5.6k
views
Answer: C: Rsamtools is not available for (for R version 4.0.2)
5.6 years ago ATpoint ★ 5.0k
0
votes
0
replies
2.4k
views
Comment: C: Visualization tool for GC-bias in SE data?
5.6 years ago ATpoint ★ 5.0k
0
votes
1
reply
2.0k
views
Comment: C: Why is an averaged reference used in DESeq2 normalisation?
5.6 years ago ATpoint ★ 5.0k
0
votes
1
reply
25k
views
Comment: C: DESeq2 batch correction best practice.
5.6 years ago ATpoint ★ 5.0k
0
votes
0
replies
3.6k
views
Comment: C: How to run tximport ?
5.6 years ago ATpoint ★ 5.0k
1
vote
1
reply
3.6k
views
Answer: A: How to run tximport ?
5.6 years ago ATpoint ★ 5.0k
1
vote
1
reply
2.0k
views
Comment: C: Correctly set contrast with DESeq2 for not full rank design matrix
5.6 years ago ATpoint ★ 5.0k
0
votes
0
replies
2.6k
views
Comment: C: Rsubread: change in behavior when accepting mixed paired end and single end file
5.6 years ago ATpoint ★ 5.0k
3
votes
1
reply
1.9k
views
Scaling option in fastMNN
fastmnn scater batchelor
updated 5.6 years ago by ★ 29k • written 5.6 years ago by ★ 5.0k
1,105 results • Page 21 of 23
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