Showing : DESEQ2 • reset
3
votes
7
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6.9k
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Pre-filtering genes counts vs normalised counts DESeq2
deseq2 pre-filtering
updated 7.5 years ago by 43k • written 7.5 years ago by ▴ 40
1
vote
3
replies
1.4k
views
DESEq2: the use of interaction term and grouping with different betaPrior arguments in older version of DESEq2
deseq2 interaction term multiple groups betaprior
updated 7.5 years ago by 43k • written 7.6 years ago by • 0
1
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3
replies
1.5k
views
LRT results DESeq2
deseq2 Job
7.6 years ago bekah ▴ 40
0
votes
1
reply
1.1k
views
DESeq2 design for time series data without "untreated"
deseq2 rnaseq multiple time points
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
2
replies
850
views
Comparing various genotypes to a control
deseq2
7.6 years ago rattray56 • 0
2
votes
2
replies
8.1k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
deseq2
7.6 years ago yueli7 ▴ 20
2
votes
2
replies
2.4k
views
Deseq2 alternative splicing in understudied organism
deseq2 splicing
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
1
reply
1.5k
views
Generating RPKM data from dds (DESeq2 pipeline)
deseq2 dds RPKM
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
5
replies
1.7k
views
DEseq2 differentially expressed genes have lower expression values than non-differentially expressed genes
deseq2 R
7.6 years ago lychen83 • 0
1
vote
8
replies
5.0k
views
DESeq2: betaPrior changes significance dramatically
deseq2 betaPrior shrinkage significance
7.6 years ago brynedal ▴ 40
0
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13
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2.2k
views
Artificial P-value caused by outlier samples
deseq2
written 7.6 years ago by ▴ 10
2
votes
5
replies
1.4k
views
trouble in install DESeq2
deseq2 package installation
7.6 years ago yueli7 ▴ 20
0
votes
8
replies
2.8k
views
inter-species RNA-seq with DEseq2: how to account for gene length differences
deseq2 normalization
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
1
reply
1.0k
views
DESeq2: Multifactor design working with example data but not with my data
deseq2 multiple factor design
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 10
1
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2
replies
1.6k
views
Study design in DESeq2
deseq2 Model matrix not full rank model.matrix study design
7.6 years ago Krzysztof Kolmus ▴ 10
4
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3
replies
1.6k
views
DESeq2 why estimate dispersion on log scale
deseq2 dispersoin estimatedispersions
written 7.6 years ago by • 0
0
votes
3
replies
1.5k
views
Analyzing a subgroups of samples, which result should I trust
deseq2 rna-seq
written 7.6 years ago by ▴ 20
1
vote
1
reply
1.2k
views
Post-processing RNA-Seq after tximport
salmon rna seq tximport ruv-seq deseq2
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
5
replies
2.0k
views
p-value the same for different contrasts DESeq2
deseq2 design and contrast matrix
updated 9 months ago by ▴ 10 • written 7.6 years ago by ▴ 10
1
vote
2
replies
543
views
OTU versus Sequence in Test Results Table
deseq2
7.6 years ago irene.yang ▴ 10
0
votes
1
reply
937
views
Identifying ago2 enriched genes under 2 different conditions
DESeq2 RIP
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
2
replies
4.2k
views
dyld: Library not loaded: @rpath/libc++abi.1.dylib
DESeq2 biocLite
updated 7.6 years ago by ★ 6.6k • written 7.6 years ago by • 0
1
vote
5
replies
1.7k
views
Comparing RNA-Seq expression data from different sequencers (HiSeq3000 and NovaSeq6000) - are there methods for batch effect corrections?
deseq2 rna-seq illumina batch effect
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 40
0
votes
1
reply
989
views
RNAseq DESeq2 paired data design help
rnaseq design matrix deseq2
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
3
replies
1.6k
views
Group comparison using DESeq
deseq2 multiple groups
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
32
votes
16
replies
21k
views
difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
tximport deseq2 TPM RPKM rnaseq
updated 7.6 years ago by ▴ 20 • written 9.4 years ago by ▴ 200
0
votes
1
reply
811
views
How to use normalized DESeq2 data for downstream analysis?
deseq2 normalization
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
3
votes
1
reply
26k
views
DESEQ2, VST PCA/Clustering: Is it not advisable to standard normalize data?
deseq2
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 10
1
vote
3
replies
1.7k
views
Information regarding the (minimum) number of genes needed to analyse with DESeq2
deseq2
7.6 years ago suranandbabu85 • 0
1
vote
3
replies
936
views
Differentially expressed genes detection between three classes with a batch effect in DESeq2
deseq2 batch effect differential gene expression
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
3
replies
1.6k
views
Results counts post DESeq same raw counts
DESeq2 results
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 60
2
votes
4
replies
2.4k
views
DESeq2 with multi level
deseq2 lfcshrink
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
2
replies
2.4k
views
DESEq2 Principal Component Analysis with different genes biotypes (protein coding, miRNAs, lncRNAs, etc)
DESeq2 PCA rlog transformation biotype
7.6 years ago JoannaF ▴ 10
1
vote
2
replies
9.4k
views
DESEQ2 design with multiple conditions
deseq2 design matrix
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
3
replies
1.2k
views
interaction model deseq2 specific DE genes
deseq2 interaction model differential expression
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 90
1
vote
8
replies
1.5k
views
Unexpected differences in results from paired analysis with DESeq2
DESEq2 paired analysis factor levels
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
1
reply
1.1k
views
DESeq2 - Test for linear combinations
deseq2 linear combination
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
4
votes
6
replies
9.8k
views
DESeq2 Error in varianceStabilizingTransformation
deseq2
updated 7.6 years ago by • 0 • written 11.1 years ago by ▴ 10
1
vote
1
reply
584
views
miRNA DE analysis using DeSeq2
deseq2
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 10
2
votes
3
replies
1.1k
views
Understand how DESeq estimates SE for log2 fold change
deseq2
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
1
vote
10
replies
1.7k
views
Allele-specific expression with different gene lenghts
deseq2 allele-specific-expression rnaseq
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 10
0
votes
13
replies
7.9k
views
DESeq2: Poor dispersion fit, even when a local or custom fit is used
deseq2 dispersion
7.6 years ago Frederik Ziebell ▴ 30
0
votes
2
replies
868
views
normalisation of count data
deseq2
updated 7.6 years ago by ★ 7.9k • written 7.6 years ago by • 0
0
votes
2
replies
1.4k
views
DESeq account for using two different siRNA constructs to knockdown same gene
deseq2 design and contrast matrix multiple factor design design matrix
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
4
replies
1.9k
views
colData and design problem
deseq2
7.6 years ago soheilazareie • 0
0
votes
2
replies
1.4k
views
tech replicates or bio replicate?
deseq2
updated 7.6 years ago by • 0 • written 7.6 years ago by ▴ 10
0
votes
1
reply
607
views
DESeq2 (Different results when using interactive term equation)
DESeq2
updated 7.6 years ago by 43k • written 7.6 years ago by ▴ 10
4
votes
8
replies
8.0k
views
Convert Normalized RNA-Seq counts to TPM after Batch Correction
sva deseq2 limma
updated 3.2 years ago by • 0 • written 7.6 years ago by ▴ 70
1
vote
2
replies
1.6k
views
deseq2 normalization with metagenomics data
deseq2
updated 7.6 years ago by ★ 1.1k • written 7.6 years ago by ▴ 860
1
vote
3
replies
2.7k
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
4,839 results • Page 64 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?
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