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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
3 months ago ATpoint ★ 4.8k
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Comment: Comment: Installation error for Rsamtools.
3 months ago ATpoint ★ 4.8k
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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
3 months ago ATpoint ★ 4.8k
1
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2
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1.1k
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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
3 months ago ATpoint ★ 4.8k
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639
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Answer: Answer: DESeq2 analysis with transcript counts
3 months ago ATpoint ★ 4.8k
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1.2k
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Answer: Answer: Why did PCA plots look exactly the same after adjusting for batch covariate in D
3 months ago ATpoint ★ 4.8k
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483
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Answer: Answer: DESeq error: counts matrix should be numeric, currently it has mode: character
3 months ago ATpoint ★ 4.8k
2
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635
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Answer: Answer: Standardization of rlog transformed counts before PCA
4 months ago ATpoint ★ 4.8k
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1.0k
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Comment: Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe
4 months ago ATpoint ★ 4.8k
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1.0k
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Comment: Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe
4 months ago ATpoint ★ 4.8k
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1.0k
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Comment: Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe
4 months ago ATpoint ★ 4.8k
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2.9k
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Comment: Comment: What type of counts data to import for performing Isoform analysis in edgeR
4 months ago ATpoint ★ 4.8k
2
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1.0k
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Answer: Answer: RSubread output significantly different from bash Subread output
4 months ago ATpoint ★ 4.8k
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2.9k
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Comment: Comment: What type of counts data to import for performing Isoform analysis in edgeR
4 months ago ATpoint ★ 4.8k
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2.9k
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Answer: Answer: What type of counts data to import for performing Isoform analysis in edgeR
4 months ago ATpoint ★ 4.8k
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366
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Comment: Comment: WGCNA with TPM tables
5 months ago ATpoint ★ 4.8k
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248
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Comment: Comment: eRNAs count
5 months ago ATpoint ★ 4.8k
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364
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Comment: Comment: Harmonizing Gene Annotations for Meta-Analysis of GSE68183 and GSE80178
5 months ago ATpoint ★ 4.8k
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492
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Answer: Answer: DESeq2 rerun returns different results
5 months ago ATpoint ★ 4.8k
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832
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Answer: Answer: Handling biological replicates in DESeq2
5 months ago ATpoint ★ 4.8k
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1.3k
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Answer: Answer: Volcano plot has many values around zero
5 months ago ATpoint ★ 4.8k
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965
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Comment: Comment: DESeq Input from Salmon + tximport/tximeta
5 months ago ATpoint ★ 4.8k
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1.4k
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Comment: Comment: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
5 months ago ATpoint ★ 4.8k
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573
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Answer: Answer: Average expression of genes across replicates
5 months ago ATpoint ★ 4.8k
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651
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Answer: Answer: Spike-in normalization method in ATACseq
5 months ago ATpoint ★ 4.8k
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1.2k
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Comment: Comment: New to Deseq2 - DEG questions / MA plot
6 months ago ATpoint ★ 4.8k
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1.2k
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Answer: Answer: Analysis of large RNA-Seq Datasets
6 months ago ATpoint ★ 4.8k
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378
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Answer: Answer: how to extract expression matrix post deseq2
6 months ago ATpoint ★ 4.8k
1
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566
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Answer: Answer: Automatically generate contrasts from a model matrix / formula
6 months ago ATpoint ★ 4.8k
1
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849
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Comment: Comment: Mostly increased counts in differentially accessible peaks using DESeq2
6 months ago ATpoint ★ 4.8k
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324
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Answer: Answer: Using Normalized Counts in DESeq2
6 months ago ATpoint ★ 4.8k
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1.1k
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Comment: Comment: What should be the normalization protocol for RNA seq data for WGCNA?
6 months ago ATpoint ★ 4.8k
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1.1k
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Answer: Answer: What should be the normalization protocol for RNA seq data for WGCNA?
6 months ago ATpoint ★ 4.8k
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734
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Comment: Comment: How to control batch effect if Group and batch are same?
6 months ago ATpoint ★ 4.8k
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0
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849
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Comment: Comment: Mostly increased counts in differentially accessible peaks using DESeq2
6 months ago ATpoint ★ 4.8k
5
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734
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Answer: Answer: How to control batch effect if Group and batch are same?
6 months ago ATpoint ★ 4.8k
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387
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Comment: Comment: Normalization RNA-seq for multiple plates
6 months ago ATpoint ★ 4.8k
1
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486
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Answer: Answer: DEseq 2 LFC shrinkage with apeglm in single-cell pseudobulk: strange volcano plo
6 months ago ATpoint ★ 4.8k
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1.2k
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Answer: Answer: New to Deseq2 - DEG questions / MA plot
6 months ago ATpoint ★ 4.8k
1
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1
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1.1k
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Comment: Comment: Size factor normalized counts for between sample comparisons - correct?
7 months ago ATpoint ★ 4.8k
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1
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1.1k
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Comment: Comment: Size factor normalized counts for between sample comparisons - correct?
7 months ago ATpoint ★ 4.8k
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1
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469
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Answer: Answer: Questions in Regards to LFC shrinkage in DSeq2
7 months ago ATpoint ★ 4.8k
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667
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Comment: Comment: Gene filtering in DESeq2
7 months ago ATpoint ★ 4.8k
1
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376
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Answer: Answer: Deseq2 - differenc in results
7 months ago ATpoint ★ 4.8k
3
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3
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757
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voom does not seem to properly correct for library size
limma
updated 7 months ago by 52k • written 7 months ago by ★ 4.8k
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757
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Comment: Comment: voom does not seem to properly correct for library size
7 months ago ATpoint ★ 4.8k
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1
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841
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Answer: Answer: More significant genes after lfcShrink in DEseq2?
8 months ago ATpoint ★ 4.8k
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1.1k
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Comment: Comment: RNASeq normlization for samples with global shift in gene expression
8 months ago ATpoint ★ 4.8k
2
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1.1k
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Answer: Answer: DESeq2 is it OK to scale transformed data in order to plot heatmaps?
8 months ago ATpoint ★ 4.8k
2
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1
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633
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Answer: Answer: Why is the inclusion of RUVs not reflected in the EDA plots produced from normal
8 months ago ATpoint ★ 4.8k
1,056 results • Page 2 of 22
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