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<prev • 625 results • page 1 of 21 • next >
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Retrieving count averages from a binding matrix
diffbind deseq2 chip-seq written 20 hours ago by rbronste • 290
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RNA-seq Differential expression analysis show no differentially expressed genes with DEseq2
deseq2 lowly_expressed_genes rna-seq written 1 day ago by mah19 • 0
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clusterProfiler GSEA for upregulated and downregulated gene sets: conflicting results
deseq2 clusterprofiler gsea written 1 day ago by hibernicah • 10
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Using ColSums vs sizeFactors in read count normalization
R fpkm deseq2 rna-seq written 3 days ago by tpaboh • 0
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7 follow
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check deseq2 design please
deseq2 rna-seq written 9 days ago by Davide • 10
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edgeR pairwise comparison
deseq2 edger written 4 days ago by rykerklie7 • 0
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Obtaining input matrix from Kallisto for later downstream analysis with Deseq2 or EdgeR.
deseq2 kallisto rna-seq edger written 5 days ago by obuhovadarina • 0
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glmnet and RNA-seq data
R deseq2 cox glmnet rna-seq written 7 days ago by Anastaziel • 0
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DEseq2 Shade PCA plot by gene counts
ggplot2 pca deseq2 heatmap written 9 days ago by paulranum11 • 40 • updated 7 days ago by Kevin Blighe ♦ 51k
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Compare different library
deseq2 rna-seq written 11 days ago by inminin • 0
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7 follow
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Effect of gene size on WGCNA
wgcna deseq2 gene size gene length written 11 days ago by rodd • 80 • updated 11 days ago by i.sudbery ♦ 6.3k
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135
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5 follow
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Why you shouldn't normalize count data using gene-length AND library size for count analysis?
normalization metagenomics deseq2 tpm counts written 13 days ago by sundaresan.vinaik • 10
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[DESeq2 multiple treatments vs. 1-by-1] Inconsistant p-adj
deseq2 rna-seq written 5.2 years ago by madkitty • 590 • updated 13 days ago by Biostar ♦♦ 20
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From DESeq2 normalized counts to heatmap in R
deseq2 rna-seq heatmap written 14 days ago by dnzkursun • 0 • updated 14 days ago by i.sudbery ♦ 6.3k
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BWA-MEM versus Salmon - how to interpret large differences between read outputs
bwa-mem alignment salmon deseq2 rna-seq written 16 days ago by gmchaput • 10 • updated 16 days ago by ATpoint ♦ 25k
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multiple comparisons in DESeq2
deseq2 rna-seq written 17 days ago by 2405592M • 40 • updated 17 days ago by swbarnes2 ♦ 7.0k
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DESeq2 design matrix
deseq2 de analysis atac-seq written 17 days ago by mickey_95 • 10 • updated 17 days ago by ATpoint ♦ 25k
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What is the current state-of-the-art for differential abundance in microbiome pathway analysis?
microbiome deseq2 pathway analysis kegg written 20 days ago by ariel • 60
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correlations between principal components and known variables
next-gen deseq2 rna-seq written 22 days ago by Fawzi Yassine • 10 • updated 20 days ago by kristoffer.vittingseerup • 2.6k
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DESeq2 Error: Error: $ operator is invalid for atomic vectors
tximport deseq2 rna-seq written 5 weeks ago by Ulduz • 20 • updated 20 days ago by Biostar ♦♦ 20
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Dealing with ensembl gene ID and enterez ID duplicates
annotation deseq2 rna-seq written 23 days ago by 2405592M • 40
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GSEA and normalized reads count
deseq2 rna-seq gsea written 23 days ago by Morris_Chair • 150
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Installing DESeq2 on RStudio
R deseq2 written 25 days ago by dikshapandey28 • 0 • updated 25 days ago by zx8754 ♦ 8.4k
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DESeq2 : results on combination of several levels of a factor
deseq2 rna-seq written 4 weeks ago by denis • 0 • updated 4 weeks ago by swbarnes2 ♦ 7.0k
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DESeq2: (1) Comparing multiple groups using a for loop & (2) normalization of time series data with housekeeping gene counts
rnaseq R deseq2 deseq written 4 weeks ago by AnonymousEngineer • 0 • updated 4 weeks ago by ATpoint ♦ 25k
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Creating contrasts for within group effects, interaction and overall effects in DESeq2
deseq2 contrast model matrix written 12 weeks ago by January • 30 • updated 4 weeks ago by Biostar ♦♦ 20
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Batch correction in DESeq2
deseq2 combat batch effect written 4 weeks ago by Arindam Ghosh • 200 • updated 4 weeks ago by Kevin Blighe ♦ 51k
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DEseq2 design with multiple assays, conditions, and replicates
R deseq2 rna-seq written 5 weeks ago by testtube • 0 • updated 5 weeks ago by swbarnes2 ♦ 7.0k
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R AnnotationDbi returning NA for pseudogenes during gene id annotation
annotationdbi R deseq2 pseudogene ensembl written 5 weeks ago by sg197 • 10 • updated 5 weeks ago by Kevin Blighe ♦ 51k
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Differential Expression Analysis : Question regarding DEseq2 Input
deseq2 rna-seq written 6 weeks ago by venura • 10
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