Bioconductor Forum

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1 month, 2 weeks ago

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Answer: DESeq2 is it OK to scale transformed data in order to plot heatmaps?

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1 month, 2 weeks ago

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Answer: Why is the inclusion of RUVs not reflected in the EDA plots produced from normal

ATpoint ★ 4.4k

2 months ago

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Answer: Plot PCA with ellipses using ggplot

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4 months, 1 week ago

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Answer: Get gene symbols for a set of hg19 coordinates

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4 months, 3 weeks ago

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Answer: fgsea significant result

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5 months, 1 week ago

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Answer: Why p value inconsistent when using different number of pathway score?

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6 months ago

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Answer: Existence of Bioconductor versus Seurat Software Ecosystems Quantitative Compari

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6 months, 2 weeks ago

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Answer: Creating data matrix in Deseq2 from tximport data invalid class SummarizedExperi

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7 months, 1 week ago

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Answer: Average biological replicates in RNA-seq

ATpoint ★ 4.4k

1 year ago

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Answer: ComBat_seq function in sva package does not return a matrix

ATpoint ★ 4.4k

1 year, 1 month ago

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Answer: lfcShrink() and batch effects in DESeq2

ATpoint ★ 4.4k

1 year, 1 month ago

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Answer: Zero counts for all samples for all genes downloaded from recount3

ATpoint ★ 4.4k

1 year, 1 month ago

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Answer: DESeq2: full model matrix is less than full rank

ATpoint ★ 4.4k

1 year, 2 months ago

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Answer: Importing RSEM processed data already formatted as a summarized experiment into

ATpoint ★ 4.4k

1 year, 4 months ago

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Answer: 'Seurat' package

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1 year, 5 months ago

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Answer: Normalisation of data using DESeq2 with multi-groups

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1 year, 6 months ago

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Answer: DESeq2 lfcShrink: swapping reference gives different results for the same compar

ATpoint ★ 4.4k

1 year, 6 months ago

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Answer: deseq2 normalization and statistical method

ATpoint ★ 4.4k

1 year, 6 months ago

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Answer: deseq2 RLE normalization

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1 year, 6 months ago

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Answer: Batch question Bulk RNA-Seq

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1 year, 7 months ago

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Answer: DESeq2 design after combatseq batch correction

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1 year, 7 months ago

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Answer: Updating DESeq2 object's design with sva output

ATpoint ★ 4.4k

1 year, 8 months ago

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Answer: [DESeq2] There is no difference in expression in my heatmap

ATpoint ★ 4.4k

1 year, 8 months ago

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Answer: mmc57bl6nj_gene_ensembl biomaRt

ATpoint ★ 4.4k

1 year, 11 months ago

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Answer: Should I set a seed prior to running AUCell?

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1 year, 11 months ago

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Answer: featureCounts: No effect of setting -d and -D?

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1 year, 11 months ago

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Answer: What is the correct way to import transcript abundances from 3' Quantseq results

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1 year, 11 months ago

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Answer: Removing metadata rows containing NA values in GRanges

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2 years, 1 month ago

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Answer: How to get started with DeseqDataSet import using CSV? Is it necessary to have C

ATpoint ★ 4.4k

2 years, 1 month ago

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Answer: Which is the best type of data for correlation or survival analysis

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2 years, 1 month ago

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Answer: SingleCellExperiment: Edit cluster IDs in colLabels

ATpoint ★ 4.4k

2 years, 4 months ago

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Answer: DESeq2: Extracting Averaged Counts Information from dds and rld

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2 years, 6 months ago

Germany

Answer: How to export Slurm to my PATH in Ubuntu 20.04

ATpoint ★ 4.4k

2 years, 8 months ago

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Answer: Help with droplevels in Deseq2

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3 years, 9 months ago

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Answer: DESeq2 variance stabilizing transformation: why is assay() different from getVar

ATpoint ★ 4.4k

3 years, 10 months ago

Germany

Answer: WHat is the difference between DEG and TopVarGenes in DESEq2?

ATpoint ★ 4.4k

3 years, 10 months ago

Germany

Comment: Normalise to a housekeeping gene in DESEq2