Showing : RUVSeq • reset
0
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DESeq2 batch correction best practice.
deseq2 limma RUVSeq
updated 3.9 years ago by 42k • written 3.9 years ago by • 0
4
votes
14
replies
8.8k
views
Extracting custom post-normalization counts from DESeq2
deseq2 r ruvseq normalization rnaseq
8.9 years ago • updated 8.8 years ago nickp60 • 0
4
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16
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7.4k
views
Normalised counts from RUVg in RUVSeq
RUVg ruvseq rnaseq
updated 8 weeks ago by • 0 • written 9.0 years ago by ▴ 150
3
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9
replies
5.1k
views
DESeq2 results with RUVSeq values
deseq2 ruvseq sizefacotrs
updated 9.0 years ago by ▴ 950 • written 9.0 years ago by ★ 1.5k
2
votes
6
replies
4.6k
views
Salmon, RUVSeq and DESeq2
Salmon DESeq2 DEG RUVSeq
2.9 years ago reganhayward • 0
6
votes
7
replies
3.9k
views
RUVseq PCA on raw data, whereas DESeq suggests stabilization
ruvseq deseq
8.5 years ago tonja.r ▴ 80
1
vote
4
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3.8k
views
Number of co-variables k in RUVSeq (RUVr)
rnaseq ruvseq RUVr edgeR
8.5 years ago David R ▴ 90
1
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8
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3.7k
views
Intepretation of RUVseq/edgeR logFC
RUVseq logFC edgeR
9.0 years ago Marie • 0
0
votes
5
replies
3.6k
views
How to remove batch effect from RNA-seq without count data?
RUVSeq FPKM removeBatchEffect RNA-seq sva
updated 2.4 years ago by ★ 4.1k • written 3.2 years ago by • 0
7
votes
2
replies
3.2k
views
Incorporating RUVSeq factors of unwanted variation in DESeq2 time course analysis
deseq2 ruvseq spike-in time course time series
updated 6.4 years ago by ▴ 950 • written 6.4 years ago by ▴ 20
0
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6
replies
3.1k
views
How to use RUVseq with voom-limma for differential expression analysis?
ruvseq limma voom
updated 7.7 years ago by ▴ 950 • written 7.7 years ago by • 0
2
votes
6
replies
3.1k
views
RUVSeq DE analysis for data with replicate samples and 4 conditions
RUVSeq
updated 7.9 years ago by • 0 • written 8.7 years ago by ▴ 40
1
vote
9
replies
2.7k
views
EDASeq, RUVSeq and edgeR together
edaseq ruvseq edgeR
updated 5.7 years ago by ▴ 950 • written 5.7 years ago by ▴ 10
4
votes
5
replies
2.6k
views
Removing unwanted variation (RUV) for paired analysis ?
ruvseq edger ruvg removebatcheffect
updated 8.3 years ago by ★ 28k • written 8.3 years ago by ▴ 10
3
votes
2
replies
2.6k
views
Normalisation before RUVg and RUV2?
ruvseq ruv
updated 9.0 years ago by ▴ 950 • written 9.0 years ago by ▴ 150
1
vote
9
replies
2.6k
views
RUV: removing unwanted variation in RNA-seq
RUV ruvseq rnaseq
9.0 years ago sergio.espeso-gil • 0
0
votes
4
replies
2.6k
views
DESeq2: Outliers, covariates and number of replicates
deseq2 ruvseq cookscutoff covariates batch
7.5 years ago j.viana • 0
2
votes
9
replies
2.6k
views
Zero inflation in RUV normalization and DE for single cell data
ruv ruvseq ruvnormalize single-cell zero-inflated
updated 6.8 years ago by ▴ 950 • written 6.8 years ago by ▴ 80
0
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2
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2.5k
views
Error: row names supplied are of the wrong length in RUVSeq
RUVSeq software error edger
updated 5.0 years ago by ▴ 950 • written 5.1 years ago by • 0
5
votes
3
replies
2.5k
views
edgeR: annotation and isoform analysis alternatives
edgeR ruvseq rnaseq isoforms
9.0 years ago sergio.espeso-gil • 0
2
votes
12
replies
2.5k
views
LAPACK/BLAS error with edgeR GLM
glm edger lapack segfault ruvseq
8.8 years ago Mark.Rogers • 0
2
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8
replies
2.5k
views
Issue with RUVs
ruvseq RUVs EDA
9.7 years ago asif.zubair • 0
5
votes
4
replies
2.4k
views
Fundamental questions about DESeq2 and RUVs in targeted gene set of 500
deseq2 ruvseq
updated 7.0 years ago by ▴ 950 • written 7.0 years ago by ▴ 10
1
vote
2
replies
2.4k
views
RUVseq using RUVg most non-differential expressed genes
ruvseq
updated 8.5 years ago by ▴ 950 • written 8.5 years ago by ▴ 80
1
vote
4
replies
2.4k
views
RUVseq control genes - invalid subscript type 'list'
ruvseq
7.9 years ago eteleeb ▴ 10
0
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1
reply
2.3k
views
Can FPKM or TPM values be used as RUVs input ?
ruvseq ruvg ruv
updated 7.3 years ago by ▴ 950 • written 7.4 years ago by • 0
1
vote
3
replies
2.3k
views
Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV ruvseq ruvr ruvnormalize single cell
6.8 years ago Nik Tuzov ▴ 80
1
vote
2
replies
2.3k
views
RUVg or RUVs
ruvseq
updated 8.3 years ago by ▴ 10 • written 8.3 years ago by ▴ 80
1
vote
4
replies
2.3k
views
Removal of batch effects from RNA-seq data for WGCNA
limma deseq2 wgcna RUVseq
4.5 years ago ag1805x ▴ 80
0
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5
replies
2.3k
views
RUVseq for microRNAs
ruvseq ruv microrna
8.8 years ago sergio.espeso-gil • 0
0
votes
8
replies
2.3k
views
normalized counts from RUVg run: is further library size normalization needed?
RUVSeq
updated 5.5 years ago by ▴ 950 • written 5.5 years ago by ▴ 10
1
vote
3
replies
2.2k
views
Using RUVSeq RUVs() to perform batch correction using technical replicates
RUVSeq ruvseq RUVs DESEq2 deseq2
updated 5.3 years ago by 50k • written 5.3 years ago by ▴ 660
2
votes
4
replies
2.2k
views
Upper-quartile normalization before RUVg normalization?
RUVSeq
updated 5.0 years ago by ▴ 950 • written 5.0 years ago by ▴ 250
0
votes
4
replies
2.2k
views
Confused about using RUVg in getting negative control genes using RUVg
RUVnormalize R edgeR RUVSeq RUVnormalizeData
23 months ago Mohamed ▴ 30
0
votes
1
reply
2.2k
views
RUVseq: How to implement to more complex time-course model?
ruvseq deseq2 model.matrix confounders
updated 6.8 years ago by ▴ 950 • written 6.8 years ago by ▴ 10
2
votes
3
replies
2.1k
views
How to determine a set of empirical control 'genes' using RUVSeq
RUVSeq
updated 23 months ago by ▴ 30 • written 7.2 years ago by • 0
3
votes
7
replies
2.1k
views
Batch effects between controls
batch-effect ruvseq
updated 6.6 years ago by 66k • written 6.6 years ago by ▴ 10
4
votes
4
replies
2.1k
views
RNA-seq batch correction using technical replicates profiled across batches
deseq2 ruvseq sva edger limma
updated 5.3 years ago by 50k • written 5.3 years ago by ▴ 660
2
votes
2
replies
2.0k
views
RUVg with differential transcript expression?
ruvseq sleuth
updated 6.4 years ago by ▴ 950 • written 6.4 years ago by • 0
0
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2
replies
2.0k
views
determine k during RUVSeq
ruvseq
updated 5.5 years ago by ▴ 950 • written 5.6 years ago by ▴ 10
0
votes
2
replies
2.0k
views
How to use RUVSeq in clustering problems?
ruvseq rna-seq clustering
updated 6.6 years ago by ▴ 950 • written 6.6 years ago by ▴ 50
1
vote
2
replies
1.9k
views
RUVSEq and VSD integration
deseq2 ruvseq covariates continuous vsd
updated 8.2 years ago by 42k • written 8.2 years ago by ▴ 10
0
votes
3
replies
1.9k
views
How can I use DESeq2 for exploratory analysis after batch effect removal using RUVSeq?
deseq2 ruvseq rna-seq batch effect
updated 6.5 years ago by 42k • written 6.5 years ago by • 0
2
votes
4
replies
1.8k
views
RUVseq design matrix for first pass of edger
ruvseq
written 8.4 years ago by ▴ 80
1
vote
3
replies
1.8k
views
RUVseq coefficients for unwanted variance in design matrix
ruvseq edger deseq2
8.5 years ago tonja.r ▴ 80
1
vote
1
reply
1.7k
views
RUVSeq installation problems
RUVSeq bioconductor biocinstaller
updated 8.3 years ago by ▴ 950 • written 8.3 years ago by • 0
2
votes
4
replies
1.7k
views
full confounding between batch and treatment effects
batch effects limma batch-correction RNAseq RUVseq
updated 4.0 years ago by 66k • written 4.0 years ago by • 0
5
votes
6
replies
1.6k
views
RUVseq to remove a library size artefact in a zebrafish brain RNA-seq dataset
RUVSeq RUV RNA-seq
updated 3.7 years ago by 66k • written 3.7 years ago by ▴ 20
1
vote
7
replies
1.6k
views
RUVseq, DESeq2, and different codesets for nanostring data
RUVSeq DESeq2
updated 23 months ago by 42k • written 23 months ago by ▴ 50
2
votes
7
replies
1.6k
views
CPM after RUVseq
RUVSeq CPM Normalization
2.0 years ago • updated 24 months ago Jess • 0
50 results • Page 1 of 1
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how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
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