Showing : Normalization • reset
0
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4
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378
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Limma- Print-tip loess normalisation-printer layout information does not match M row dimension
Normalization limma within-arraynormalisation Printerlayout
7 days ago dseauer • 0
1
vote
2
replies
868
views
Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
16 days ago • updated 15 days ago Ai • 0
0
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0
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107
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Diffbind: Cut&Run: E-coli spike-in
Normalization DiffBind
16 days ago kim • 0
0
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1
reply
332
views
Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 17 days ago by ★ 4.5k • written 19 days ago by • 0
3
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4
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453
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Are transformed values from rlog /vst log2 normalized counts?
Normalization DESeq2 rlog vst
5 weeks ago Eva ▴ 10
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0
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134
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Background normalization of Diffbind dba.normalize
Normalization DiffBind
6 weeks ago Young Boqin • 0
1
vote
1
reply
225
views
Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 7 weeks ago by ★ 4.5k • written 7 weeks ago by • 0
1
vote
5
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779
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RNASeq normlization for samples with global shift in gene expression
qsmooth DESeq2 limma Normalization
updated 12 weeks ago by 51k • written 3 months ago by • 0
0
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2
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331
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Analysis of transcription inhibition with DESeq2
SpikeIn DESeq2 Normalization
written 3 months ago by • 0
1
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3
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846
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Combining two bulk RNA seq datasets
RNASeqData DESeq2 Normalization
5 months ago Tanvi • 0
2
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2
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501
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Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 5 months ago by ▴ 10 • written 6 months ago by • 0
0
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2
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514
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Normalisation using clinical traits in RNA seq using DESeq2
DESeq2 clinicaltraits Normalization batchnormalisation
6 months ago • updated 5 months ago sukeshinik5 ▴ 20
0
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1
reply
376
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normalization across different species for DESeq2 analysis
DESeq2 normalization Normalization acrossspecies
updated 6 months ago by 42k • written 6 months ago by • 0
0
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1
reply
362
views
normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 6 months ago by ★ 4.5k • written 6 months ago by • 0
2
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2
replies
896
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[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
7 months ago Henry ▴ 10
1
vote
6
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828
views
DESeq2 step-by-step Normalization then DGE separately & Normalization methods and switchability
DESeq2 Normalization
updated 7 months ago by 42k • written 7 months ago by • 0
0
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2
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508
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edgeR analysis: glm functions and offset matrix
tximport edgeR Normalization
7 months ago Marianna ▴ 20
1
vote
4
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640
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EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
8 months ago samuel.channon • 0
0
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0
replies
375
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
8 months ago Giovanni Calice ▴ 160
2
votes
1
reply
504
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Normalization factors when there is a possible unidirectional expression
limma Normalization DifferentialExpression
updated 9 months ago by ★ 4.5k • written 9 months ago by • 0
2
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2
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983
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Graphing DEseq2 Normalized Counts using ggplot2
DESeq2 Normalization RNASeq
9 months ago jackafiore • 0
2
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3
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660
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 9 months ago by 67k • written 9 months ago by • 0
1
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3
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960
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Comparing relative expression of a conserved gene between distantly related species.
ComparativeGenomics Normalization RNASeq DESeq2
written 10 months ago by • 0
0
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1
reply
703
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 10 months ago by ★ 4.5k • written 10 months ago by • 0
2
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4
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1.4k
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization edgeR RNASeq
10 months ago Sabiha ▴ 20
1
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1
reply
713
views
DESeq2 Normalization for QC Samples
DESeq2 Normalization
updated 10 months ago by 42k • written 10 months ago by • 0
2
votes
2
replies
1.8k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
10 months ago Linton • 0
0
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0
replies
473
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization SomaticSignatures
12 months ago vasily.dobrovolsky • 0
0
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6
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1.5k
views
DESeq2 Normalization with 4 Groups
Normalization RNASeq DESeq2
13 months ago erika.maldonado-rosado • 0
0
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0
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492
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Dual species RNA-seq, Library size and normalization
Normalization edgeR RNASeq DESeq2
13 months ago Florian • 0
1
vote
11
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1.8k
views
DESeq2 gene length normalisation
Normalization DESeq2
updated 13 months ago by 42k • written 13 months ago by • 0
1
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4
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4.0k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 24 months ago by • 0
1
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5
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1.4k
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Does voom normalization quantile create difference in DGE genes when distribution of patients is similar (no big differences in quantiles)?
limmaGUI normalization limma voom Normalization
updated 16 months ago by 51k • written 16 months ago by • 0
0
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3
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838
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Normalization of different input materials
Normalization DESeq2
updated 17 months ago by ★ 4.5k • written 17 months ago by ▴ 10
0
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2
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1.1k
views
Can VST-transformed community composition data be expressed as relative abundance?
vst relativeabundance Normalization DESeq2
17 months ago dwas • 0
5
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11
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4.9k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 18 months ago by ▴ 20
0
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3
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976
views
Is the gene-specific PCR efficiency a serious concern for intrasample comparisons in RNA-Seq?
RNA-Seq normalization PCR_efficiency bias intrasample_comparison
updated 18 months ago by 67k • written 18 months ago by • 0
1
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2
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1.2k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
19 months ago Abdul ▴ 20
2
votes
2
replies
883
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
19 months ago Abdul ▴ 20
1
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2
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792
views
RNA-Seq normalization of pre and post treatment groups
Normalization RNASeq
written 19 months ago by • 0
0
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2
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1.1k
views
Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
20 months ago Assa Yeroslaviz ★ 1.5k
1
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6
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2.3k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 15 months ago by 51k • written 4.2 years ago by ▴ 20
2
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3
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2.6k
views
deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 20 months ago by ★ 4.5k • written 20 months ago by ▴ 10
2
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1
reply
1.4k
views
deseq2 RLE normalization
RLE normalization deseq2
updated 20 months ago by ★ 4.5k • written 20 months ago by ▴ 10
0
votes
1
reply
843
views
Using DESeq2 only for normalization
DESeq2 Normalization
updated 20 months ago by ★ 4.5k • written 20 months ago by • 0
0
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1
reply
579
views
processing samples with significantly different counts
DESeq2 Normalization
updated 20 months ago by ★ 4.5k • written 20 months ago by • 0
0
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5
replies
1.7k
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DESeq Normalization and miRNAs Filtering
DESeq2 Normalization
updated 20 months ago by ★ 4.5k • written 20 months ago by • 0
2
votes
3
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1.3k
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 20 months ago by ★ 4.5k • written 20 months ago by ▴ 20
0
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1
reply
773
views
Normalization of RNA seq data before DESeq2 and PCA in case of strong batch effects
DESeq2 Normalization sva
updated 20 months ago by ★ 4.5k • written 20 months ago by • 0
3
votes
3
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1.0k
views
What is cpmByGroup used for?
edgeR Normalization
updated 21 months ago by 67k • written 21 months ago by • 0
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Answer: Unlocking Potential: NURS FPX Strategies and Insights by efsane_kral2000 • 0
https://diendannhansu.com/threads/hayal-sohbet-odalari.667004/ https://forum.realdigital.org/u/serkan https://animefagos.com/miembros/ser…
Comment: Unlocking Potential: NURS FPX Strategies and Insights by efsane_kral2000 • 0
https://www.hayalsohbet.net https://www.yerlichat.com https://www.yerlichat.net https://www.mavisim.net https://www.hayalchat.com http…
Comment: Is it recommended to analyze different tissues together when using edgeR by Gordon Smyth 51k
Just plot the samples with plotMDS(). Alternatively you would use `voomLmFit()` with `sample.weights=TRUE` or `var.group=tissue`. In princ…
Comment: Handling Epic Array Data by Melisa Tecik • 0
Thanks a lot for the help. You saved my day
Answer: Differene between the Wald and LRT test for time-series gene expression data by James W. MacDonald 67k
The advantage to using the LRT is that it's an omnibus test that tells you if there are changes at any time point. If you have lots of time…
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Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Answer: Allele frequencies for ALL alleles of one SNP ?
Answer: Is it recommended to analyze different tissues together when using edgeR
Answer: Is it recommended to analyze different tissues together when using edgeR
Answer: Using Affymetrix Custom Array
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