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3
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Questions regarding VST/rlog correction to plot sample distances between RNA-seq samples
R deseq rna-seq written 1 day ago by salamandra • 130 • updated 21 hours ago by Kevin Blighe ♦ 24k
5
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76
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Does importing HTseqcounts with txtimport corrects for gene length?
R deseq rna-seq written 2 days ago by salamandra • 130 • updated 2 days ago by Devon Ryan ♦ 81k
0
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1
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77
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1
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DE seq analysis using transcript expression data
deseq transcript written 11 days ago by shivangi.agarwal800 • 10 • updated 11 days ago by doctor.dee005 • 80
2
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1
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121
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1
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Plot LFC with pheatmap of differentially expressed gene list from DESeq2.
heatmap pheatmap deseq2 deseq written 25 days ago by megannj • 10 • updated 25 days ago by Devon Ryan ♦ 81k
1
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0
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201
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DEseq three-group comparison
deseq differential expression analysis rna-seq written 7 weeks ago by duvaller • 10 • updated 7 weeks ago by genomax ♦ 52k
3
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1
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260
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1
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Differential Expression of a normalized RNAseq expression dataset
glioblastoma R tcga deseq rna-seq written 3 months ago by Arko • 10 • updated 3 months ago by Kevin Blighe ♦ 24k
0
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1
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232
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1
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Prefiltering gene lists and DESeq
R deseq rna-seq written 3 months ago by jjrin • 10 • updated 3 months ago by h.mon ♦ 16k
15
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2
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397
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2
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converting RSEM bam output into sam files for DEseq?
sam bam deseq rsem rna-seq written 4 months ago by Sepd • 0
2
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1
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375
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1
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Why are DESeq2 size factors not null in case of sparse count matrix?
deseq2 deseq rna-seq written 5 months ago by holgerbrandl • 10 • updated 5 months ago by Kevin Blighe ♦ 24k
4
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204
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0
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Error in my DESeq script
R deseq rna-seq written 5 months ago by sandKings • 10
13
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4
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692
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5 follow
4
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Is it appropriate to assume genes of similar expression level also have similar variance?
differential-expression deseq written 6 months ago by -_- • 610 • updated 6 months ago by Santosh Anand • 3.5k
3
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2
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434
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Subsetting DESeq2 results by padj quantity
R deseq2 deseq written 6 months ago by rbronste • 170 • updated 6 months ago by mbk0asis • 350
0
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0
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301
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0
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Multifactor design result extraction in voom limma
voom deseq2 limma deseq written 7 months ago by aarthir239 • 0
10
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1
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575
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5 follow
1
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Copy number variation using HTSeq/DESeq2
htseq copy number deseq written 7 months ago by ThePresident • 90 • updated 7 months ago by WouterDeCoster ♦ 30k
5
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1
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706
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sleuth vs deseq2
deseq2 deseq rna-seq written 8 months ago by Mozart • 40 • updated 8 months ago by Kevin Blighe ♦ 24k
0
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0
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474
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0
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Pairwise comparisons in Differential Expression
deseq rna-seq written 8 months ago by Ron • 790
5
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1
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478
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1
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Zero read count with deseq2
rnaseq deseq2 deseq differential expression written 8 months ago by scamiolo • 10 • updated 8 months ago by WouterDeCoster ♦ 30k
0
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1
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395
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1
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Asymmetric Differential Expression
R deseq2 deseq rna-seq edger written 8 months ago by gaber898 • 0 • updated 8 months ago by Kevin Blighe ♦ 24k
0
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1
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408
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1
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Accessing RPM from DESeq2
deseq rna-seq written 8 months ago by sjj2121 • 0 • updated 8 months ago by ATpoint • 5.7k
13
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1
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11k
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5 follow
1
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R DESeq: What exactly is Variance Stabilizating Transformation?
R deseq vst written 3.9 years ago by komal.rathi • 3.2k
14
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2
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12 follow
2
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rRNA Removal In Rna-Seq Data
deseq rna-seq written 4.7 years ago by jockbanan • 370 • updated 9 months ago by h.mon ♦ 16k
2
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1
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664
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1
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DESeq2 unequal sample sizes
R deseq2 deseq written 10 months ago by glados • 20 • updated 10 months ago by Kevin Blighe ♦ 24k
3
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1
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525
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1
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Differential expressed genes in DESeq
expression rna deseq rna-seq written 10 months ago by Lila M • 380 • updated 10 months ago by Devon Ryan ♦ 81k
1
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0
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408
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0
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Masking repeats in ATAC-seq data
repeats atac-seq deseq written 10 months ago by rbronste • 170
2
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1
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1.1k
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1
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Computing TPM from normalized read count from DESEQ
expression mirna deseq genomics rna-seq written 11 months ago by jack • 710 • updated 11 months ago by geek_y ♦ 8.6k
3
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0
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580
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RNA-seq gene expression normalization for independent samples
gene expression deseq rna-seq written 11 months ago by Amos • 0
0
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3
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653
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5 follow
3
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FPKM vs READ COUNT
normalization ngs deseq rna-seq written 13 months ago by avinashdhar123 • 0 • updated 13 months ago by Devon Ryan ♦ 81k
2
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1
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888
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1
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Why DESeq2 in parallel mode is slower than normal?!
parallel deseq rna-seq differential expression written 13 months ago by ilikebing2000 • 50 • updated 13 months ago by Michael Love • 1.6k
0
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349
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Is the VST implemented in DESeq useful on time-series cell differentiation datasets?
deseq vst written 15 months ago by jiab • 20
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442
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0
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How to annotate gene name on a differential read count plot by DESeq2?
R deseq rna-seq differential rnaseq written 16 months ago by tw30282 • 10
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