Showing : svaseq • reset
2
votes
2
replies
914
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Double normalising when using sva and deseq2
DESeq2 Normalisation Bulkrnaseq Svaseq
17 months ago BioinfGuru ▴ 70
0
votes
1
reply
1.1k
views
how to identify the unwanted variables independent of phenotypes
RUVSeq svaseq
3.3 years ago Tongjun • 0
0
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0
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1.5k
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SVA method for estimating surrogate variables of RNA Seq
RNASeq sva svaseq
updated 3.8 years ago by 68k • written 3.8 years ago by • 0
0
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0
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1.2k
views
SVAseq for differential transcript usage and differential splicing analysis
limma sva Leafcutter SVAseq
4.1 years ago georgia.katsoula ▴ 40
0
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1
reply
1.2k
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SVA for visualisation purposes
sva svaseq surrogate variable analysis
updated 5.6 years ago by 68k • written 5.6 years ago by ▴ 30
1
vote
1
reply
1.3k
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svaseq - over adjustment
svaseq sva
6.6 years ago flippy23 • 0
1
vote
1
reply
1.2k
views
sva correction for MEDIPS
MEDIPS svaseq sva
updated 6.8 years ago by ▴ 570 • written 6.8 years ago by • 0
2
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3
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2.3k
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Batch-effect: batch in design and corrected batch with sva- DESeq2
deseq2 svaseq
6.8 years ago bioinfo • 0
3
votes
4
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2.1k
views
Calling svaseq() multiple times
edger sva svaseq limma
updated 7.5 years ago by ★ 7.9k • written 7.5 years ago by ▴ 20
1
vote
2
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4.1k
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Applying SVA to RNA-Seq dataset
DESeq2 sva svaseq batch effect correction
7.8 years ago L_K • 0
0
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0
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1.4k
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correlated known batch effect correction using svaseq
svaseq batcheffectcorrection
8.0 years ago burcu.atasu • 0
1
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1
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2.0k
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Outputting batch-effect free normalized counts
ruvseq svaseq edaseq
updated 8.0 years ago by ▴ 980 • written 8.0 years ago by ▴ 10
0
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0
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1.6k
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Batch correction with uncertain biological variables
sva svaseq batch effect batch effects batch effect correction
8.2 years ago vedran.franke • 0
1
vote
6
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2.2k
views
RNASeq fold change analysis after subtraction of contaminating MEF signal
deseq2 svaseq
updated 8.3 years ago by 43k • written 8.3 years ago by ▴ 10
3
votes
4
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2.3k
views
Taking surrogate variable into account before running PCA
sva svaseq
updated 8.4 years ago by ★ 4.1k • written 8.4 years ago by • 0
3
votes
2
replies
2.9k
views
(batch) corrections of RNA-seq data: integrating LIMMA and SVA
limma sva svaseq
updated 8.7 years ago by ★ 29k • written 8.7 years ago by ▴ 670
2
votes
7
replies
2.3k
views
Is possible to apply 'svaseq' with 'DEXSeq' design in order to remove unknown batch effects ?
svaseq dexseq
updated 8.8 years ago by ★ 1.9k • written 8.8 years ago by • 0
3
votes
6
replies
3.4k
views
is it necessary to check batch effect in this case? and how to?
svaseq combat sva RANseq batcheffect removebatcheffect
updated 9.1 years ago by ▴ 50 • written 9.1 years ago by ▴ 10
5
votes
7
replies
6.5k
views
Correcting for known and surrogate variables in DESeq2
deseq2 svaseq
9.1 years ago Akula, Nirmala NIH/NIMH [C] ▴ 190
2
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1
reply
2.4k
views
Regarding batch effect in Deseq2 package
deseq2 sva svaseq
updated 9.2 years ago by 43k • written 9.2 years ago by ▴ 20
0
votes
3
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3.1k
views
can we use sva function to estimate artifacts for rna seq data?
sva svaseq batcheffectcorrection
updated 9.3 years ago by ▴ 650 • written 9.3 years ago by ▴ 20
1
vote
5
replies
4.3k
views
PCA of svaseq "cleaned" counts and DESeq2 SV subtracted counts are different?
deseq2 sva svaseq pca
9.4 years ago Peter Alto ▴ 20
22 results • Page 1 of 1
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Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Votes
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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