Showing : DESEQ2 • reset
9
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15
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7.3k
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DESeq2 on NanoString Data
deseq2 nanostring
updated 12 weeks ago by 43k • written 7.5 years ago by ▴ 170
2
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3
replies
1.8k
views
Better to use rlog or vst transformation for data quality assessment of differental expression data based on size factors?
DESeq2 quality assesment vst rlog transformation
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 10
0
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2
replies
936
views
should I get the logarithm of count values when I use standard method
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 30
3
votes
4
replies
1.2k
views
A DESeq2 problem in dealing with case-control study
deseq2
updated 7.5 years ago by ★ 1.4k • written 7.5 years ago by • 0
2
votes
3
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1.8k
views
ASE using DESeq2
deseq2 deseq normalization allele specific expression rnaseq
updated 7.5 years ago by ★ 3.8k • written 7.5 years ago by • 0
0
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1
reply
744
views
DEseq2 Replicate Not Normalizing
deseq2 normalization
7.5 years ago mpw183 • 0
0
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1
reply
1.3k
views
Independent filtering very different across different contrasts
deseq2 independent filtering
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
2
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2
replies
1.6k
views
DESEq2 Principal Component Analysis : generate two PCA, one with condition1 samples and an other with condition2
DESEq2 PCA
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 10
1
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2
replies
3.5k
views
DESeq2 with CIBERSORT cell proportions?
deseq2 rnaseq
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
4
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2
replies
8.6k
views
DESeq2 : normalized counts
rnaseq deseq2 normalized counts
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 10
0
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5
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1.9k
views
DESeq2 design formula - correlation with ordered variable
DESeq2 design formula matrix
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 170
2
votes
4
replies
1.5k
views
Problem in running DESeq2 in r
deseq2 DESeqDataSetFromMatrix software error
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
0
votes
2
replies
811
views
DESeq Timepoint Design (using Baseline as reference)
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
2
votes
13
replies
2.2k
views
DESeq2 differential analysis - log2FC doubt
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 260
0
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1
reply
1.0k
views
How to find non-DE miRNAs using Deseq2 ?
deseq2 differentially expression mirna-seq mirna target prediction
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
7
votes
11
replies
6.2k
views
Comparing means of VST tranformed RNA-Seq counts in different groups of samples with boxplots
VST deseq2 boxplot rnaseq
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 90
0
votes
2
replies
1.3k
views
constructing a DESeqDataSet
deseq2 DESeqDataSet
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
1
vote
2
replies
762
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Analysis guidance for data inclusion in deseq2 analysis: data subsets vs contrasts
deseq2 rnaseq
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
2
votes
2
replies
1.7k
views
Using DESeq2 normalisation method on a tximport list of matrices without sample information
deseq2
updated 7.5 years ago by ★ 13k • written 7.5 years ago by ▴ 30
1
vote
1
reply
4.0k
views
What does the relative-log expression normalization mean in the deseq2 wrapper function ?
rle deseq2 normalization
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
5
votes
4
replies
3.4k
views
Why DESeq2 and edgeR give different results?
deseq2 rnaseq differential gene expression edger
updated 4.5 years ago by 53k • written 7.5 years ago by ▴ 120
1
vote
4
replies
677
views
Question in applying DESeq2
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
0
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7
replies
2.3k
views
DESeq2 design error message with ordered factor but not numeric
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
3
votes
6
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1.5k
views
help DESeq2 model design
deseq2 R
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
10
votes
6
replies
7.6k
views
Log2FoldChange shrinkage method in DESeq2
deseq2 apeglm lfcshrink
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 90
0
votes
1
reply
951
views
Normalized Values of Multi Sample Count Matrix with DESeq2
rnaseq deseq2 normalization
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
1
vote
4
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1.6k
views
DESeq2 result filtering
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
2
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6
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2.2k
views
[DESeq2] Different results from tutorial
deseq2 tximportdata tximport
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
3
votes
6
replies
12k
views
Unable to load library DESeq2 (installation of package had non-zero exit status)
DESeq2
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 40
1
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1
reply
1.8k
views
Question about using DESeq2 package to calculate FPKM
deseq2 fpkm()
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
0
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8
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3.3k
views
Differences in gene length passed to DESeq2 by tximport reulted in different gene rankings
deseq2 tximport rsem saimon
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
4
votes
7
replies
3.6k
views
Differential ChIP-Seq Analysis with DESeq2
chipseq deseq2 featurecounts differential binding analysis
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 20
1
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5
replies
3.9k
views
steps to get up and down regulated genes using DESeq2
deseq2 without replicate no replicates
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
0
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1
reply
2.1k
views
DeSeq2 for comparison of experimental factors on microbial composition
deseq2 microbiome fungi fungal microbiome
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
6
votes
7
replies
5.2k
views
Batch Correction with only one sample in a batch
batch effect deseq2 limma
updated 7.5 years ago by ★ 7.9k • written 7.5 years ago by ▴ 40
1
vote
4
replies
2.5k
views
DESeq2 design formula - how to account for donor and /or sample?
deseq2 multiple factor design rna-seq
updated 7.5 years ago by ★ 1.4k • written 7.5 years ago by • 0
0
votes
5
replies
1.7k
views
How to simulate time course RNA seq data using DESeq?
deseq2 R makeexampledeseqdataset deseq
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
1
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1
reply
1.6k
views
Controlling for batch after Salmon-Tximport
deseq2 wgcna salmon rna-seq DESeq2
updated 7.5 years ago by 68k • written 7.5 years ago by • 0
0
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1
reply
1.7k
views
DESeq2::lfcshrink() for complex contrast designs
deseq2 lfcshrink interaction term
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
1
vote
1
reply
1.7k
views
Installing DESeq2 error: missing value where TRUE/FALSE needed
deseq2 error biocinstaller
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 10
0
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5
replies
1.2k
views
Few significance in DESeq2
deseq2
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
1
vote
6
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1.9k
views
differential expression analysis with big dataset and >500 surrogate variables
SVA deseq2 differential expression LRT
7.5 years ago aec ▴ 90
0
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6
replies
1.6k
views
Handling diploid vs haploid reference genomes in salmon > DESeq2 analysis
deseq2 salmon
updated 7.5 years ago by 25k • written 7.5 years ago by • 0
2
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11
replies
3.5k
views
Finding unchanged genes using altHypothesis = "lessAbs"
deseq2 lessAbs
7.5 years ago raya.fai ▴ 60
0
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5
replies
1.4k
views
edgeR and DESeq2
edger deseq2
updated 7.5 years ago by 53k • written 7.5 years ago by ▴ 20
2
votes
7
replies
26k
views
use EDAseq normalized data as input of DESeq2
deseq2 edaseq
7.5 years ago zoppoli pietro ▴ 10
3
votes
2
replies
874
views
calculate foldchange after rlogTransformation
deseq2
7.5 years ago yueli7 ▴ 20
0
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2
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1.2k
views
summarizeOverlaps 'sequences have incompatible seqlengths' errors
deseq2
updated 7.5 years ago by 25k • written 7.5 years ago by • 0
1
vote
0
replies
1.8k
views
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
deseq2 tcga
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 10
2
votes
5
replies
2.3k
views
DESeq2 on CIRI results ?
deseq2 circrna ciri ciri2
7.5 years ago sbcn ▴ 80
4,839 results • Page 63 of 97
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Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
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