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Comment: Comment: Should I use the 'log2FoldChange' from lfcShrink() to subset significant DEGs?
13 months ago ATpoint ★ 4.6k
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Answer: Answer: Deseq2 -Model matrix not full rank error: A complex case
13 months ago ATpoint ★ 4.6k
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Answer: Answer: lfcSE always positive. Does this make sense?
13 months ago ATpoint ★ 4.6k
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Answer: Answer: Read Count Normalisation and validation of analysis
13 months ago ATpoint ★ 4.6k
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Answer: Answer: Should I use the 'log2FoldChange' from lfcShrink() to subset significant DEGs?
13 months ago ATpoint ★ 4.6k
1
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Answer: Answer: DESeq2: the model matrix is not full rank issue
13 months ago ATpoint ★ 4.6k
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Comment: Comment: scRNA-seq as pseudobulk for DEseq2: does AggregateExpression() normalize counts?
13 months ago ATpoint ★ 4.6k
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Answer: Answer: scRNA-seq as pseudobulk for DEseq2: does AggregateExpression() normalize counts?
13 months ago ATpoint ★ 4.6k
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938
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Comment: Comment: Different genes expression with limma
13 months ago ATpoint ★ 4.6k
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766
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Answer: Answer: tximport error with rsem files
13 months ago ATpoint ★ 4.6k
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577
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Answer: Answer: Running DESeq on normalized data
14 months ago ATpoint ★ 4.6k
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597
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Comment: Comment: Inconsistent results in DiffBind
14 months ago ATpoint ★ 4.6k
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Comment: Comment: Can't download Bioconductor
14 months ago ATpoint ★ 4.6k
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1.8k
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Comment: Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
14 months ago ATpoint ★ 4.6k
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1.8k
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Comment: Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
14 months ago ATpoint ★ 4.6k
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Comment: Comment: JoinLayers function for Seurat Object for annotation with SingleR
14 months ago ATpoint ★ 4.6k
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1.6k
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Comment: Comment: DESeq2 : stat or lfcshrink for GSEA analysis
14 months ago ATpoint ★ 4.6k
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Answer: Answer: WGCNA documentation not available
14 months ago ATpoint ★ 4.6k
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1.6k
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Answer: Answer: ScRNAseq analysis scran :: quickcluster Error
14 months ago ATpoint ★ 4.6k
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Comment: Comment: DiffBind getting Fold values of near 0
14 months ago ATpoint ★ 4.6k
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3.0k
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Answer: Answer: SingleR annotation of several slots/patients
14 months ago ATpoint ★ 4.6k
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1.3k
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Answer: Answer: How does Deseq2 deal with the row with zero when calculating size factors
14 months ago ATpoint ★ 4.6k
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Comment: Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05
14 months ago ATpoint ★ 4.6k
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681
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Answer: Answer: Differential gene expression analysis
14 months ago ATpoint ★ 4.6k
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697
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Comment: Comment: bam or VCF files from GSE75010
14 months ago ATpoint ★ 4.6k
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1.8k
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Answer: Answer: DESeq: Error in DESeqDataSet(se, design = design, ignoreRank) : some values i
14 months ago ATpoint ★ 4.6k
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Answer: Answer: WGCNA less samples
14 months ago ATpoint ★ 4.6k
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Comment: Comment: DropletUtils read10xcounts adds the 12 Cell Multiplexing Oligo tags as gene name
14 months ago ATpoint ★ 4.6k
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1.5k
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Answer: Answer: DropletUtils read10xcounts adds the 12 Cell Multiplexing Oligo tags as gene name
14 months ago ATpoint ★ 4.6k
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1.1k
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Answer: Answer: DESeq2 estimateSizeFactors iterate takes too long
14 months ago ATpoint ★ 4.6k
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1.6k
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Answer: Answer: How to find stop codons for a list of genes
14 months ago ATpoint ★ 4.6k
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698
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Comment: Comment: Fail to annotate chromosome data to single cell sequencing data obtained from ce
14 months ago ATpoint ★ 4.6k
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3.1k
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Comment: Comment: Error when Installing BioConductor Package ('affy')
14 months ago ATpoint ★ 4.6k
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466
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Answer: Answer: DESeq2 design with unbalance data and a multifactor design
15 months ago ATpoint ★ 4.6k
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2.0k
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Comment: Comment: trying to add SingleR label to Seurat Object fails
15 months ago ATpoint ★ 4.6k
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8.8k
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Comment: Comment: scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by pa
15 months ago ATpoint ★ 4.6k
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798
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Answer: Answer: WGCNA tutorial docs needed: Horvath Lab site down
15 months ago ATpoint ★ 4.6k
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1.4k
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Answer: Answer: weird volcano plot
15 months ago ATpoint ★ 4.6k
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1.4k
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Comment: Comment: weird volcano plot
15 months ago ATpoint ★ 4.6k
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1.5k
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Comment: Comment: DESeq2 unable to handle large count values
15 months ago ATpoint ★ 4.6k
2
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1.8k
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Answer: Answer: SparseArray unable to install on Bioc 3.18
15 months ago ATpoint ★ 4.6k
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883
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Comment: Comment: rnaSeqGene workflow not available in Bioconductor 3.18
15 months ago ATpoint ★ 4.6k
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735
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Comment: Comment: DESeq2: FPMs varying based on sample groups used
15 months ago ATpoint ★ 4.6k
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1.9k
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Answer: Answer: MA plot for DESEq2 analysis
15 months ago ATpoint ★ 4.6k
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483
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Answer: Answer: DESeqResults object -> extract statistics results with rownames (gene)
15 months ago ATpoint ★ 4.6k
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3.2k
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Comment: Comment: Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu
15 months ago ATpoint ★ 4.6k
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735
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Answer: Answer: DESeq2: FPMs varying based on sample groups used
15 months ago ATpoint ★ 4.6k
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1.2k
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Comment: Comment: Quickly calculating adjusted Fold Change with DESeq2
15 months ago ATpoint ★ 4.6k
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3
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1.9k
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Comment: Comment: Accounting for Batch effect reduces DEGs drastically
15 months ago ATpoint ★ 4.6k
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2
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1.1k
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Comment: Comment: Mfuzz package loading issues
15 months ago ATpoint ★ 4.6k
1,017 results • Page 5 of 21
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