Showing : SVAseq • reset
0
votes
1
reply
643
views
how to identify the unwanted variables independent of phenotypes
RUVSeq svaseq
22 months ago Tongjun • 0
0
votes
0
replies
1.1k
views
SVA method for estimating surrogate variables of RNA Seq
RNASeq sva svaseq
updated 2.3 years ago by 65k • written 2.3 years ago by • 0
0
votes
0
replies
790
views
SVAseq for differential transcript usage and differential splicing analysis
limma sva Leafcutter SVAseq
2.6 years ago georgia.katsoula ▴ 40
0
votes
1
reply
770
views
SVA for visualisation purposes
sva svaseq surrogate variable analysis
updated 4.1 years ago by 65k • written 4.1 years ago by ▴ 30
1
vote
1
reply
925
views
svaseq - over adjustment
svaseq sva
5.1 years ago flippy23 • 0
1
vote
1
reply
880
views
sva correction for MEDIPS
MEDIPS svaseq sva
updated 5.3 years ago by ▴ 570 • written 5.3 years ago by • 0
2
votes
3
replies
1.5k
views
Batch-effect: batch in design and corrected batch with sva- DESeq2
deseq2 svaseq
5.3 years ago bioinfo • 0
3
votes
4
replies
1.5k
views
Calling svaseq() multiple times
edger sva svaseq limma
updated 6.0 years ago by ★ 7.9k • written 6.0 years ago by ▴ 20
1
vote
2
replies
3.1k
views
Applying SVA to RNA-Seq dataset
DESeq2 sva svaseq batch effect correction
6.3 years ago L_K • 0
0
votes
0
replies
1.1k
views
correlated known batch effect correction using svaseq
svaseq batcheffectcorrection
6.5 years ago burcu.atasu • 0
1
vote
1
reply
1.5k
views
Outputting batch-effect free normalized counts
ruvseq svaseq edaseq
updated 6.5 years ago by ▴ 950 • written 6.5 years ago by ▴ 10
0
votes
0
replies
1.2k
views
Batch correction with uncertain biological variables
sva svaseq batch effect batch effects batch effect correction
6.7 years ago vedran.franke • 0
1
vote
6
replies
1.7k
views
RNASeq fold change analysis after subtraction of contaminating MEF signal
deseq2 svaseq
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 10
3
votes
4
replies
1.7k
views
Taking surrogate variable into account before running PCA
sva svaseq
updated 6.9 years ago by ★ 3.9k • written 6.9 years ago by • 0
3
votes
2
replies
2.5k
views
(batch) corrections of RNA-seq data: integrating LIMMA and SVA
limma sva svaseq
updated 7.2 years ago by ★ 28k • written 7.2 years ago by ▴ 670
2
votes
7
replies
1.8k
views
Is possible to apply 'svaseq' with 'DEXSeq' design in order to remove unknown batch effects ?
svaseq dexseq
updated 7.3 years ago by ★ 1.9k • written 7.3 years ago by • 0
3
votes
6
replies
2.3k
views
is it necessary to check batch effect in this case? and how to?
svaseq combat sva RANseq batcheffect removebatcheffect
updated 7.5 years ago by ▴ 50 • written 7.6 years ago by ▴ 10
5
votes
7
replies
5.2k
views
Correcting for known and surrogate variables in DESeq2
deseq2 svaseq
7.6 years ago Akula, Nirmala NIH/NIMH [C] ▴ 190
2
votes
1
reply
1.7k
views
Regarding batch effect in Deseq2 package
deseq2 sva svaseq
updated 7.7 years ago by 42k • written 7.7 years ago by ▴ 20
0
votes
3
replies
2.4k
views
can we use sva function to estimate artifacts for rna seq data?
sva svaseq batcheffectcorrection
updated 7.8 years ago by ▴ 650 • written 7.8 years ago by ▴ 20
1
vote
5
replies
3.7k
views
PCA of svaseq "cleaned" counts and DESeq2 SV subtracted counts are different?
deseq2 sva svaseq pca
7.9 years ago Peter Alto ▴ 10
21 results • Page 1 of 1
Recent ...
Replies
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
That ll be helpful. Thank you.
Comment: Log-cpm values from limma by Shaimaa Gamal • 0
I have performed RUVg correction and extracted W, factors of unwanted variation. According to limma guide, > In the limma approach to RNA…
Comment: DSS CpG coverage threshold by j.gilbert • 0
Might be a bit late for the original poster :') but in case anyone else is wondering, the DSS user guide says: *Q: Do I need to filter out…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Segmentation is of the whole genome, I'll write some code for doing this later today.
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
I'll take a look later. For next time, I've edited your post by enclosing the code in triple backticks (on their own link). This properly …
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Awards • All
Popular Question to ATpoint ★ 4.1k
Teacher to Michael Love 42k
Popular Question to Haibo Liu • 0
Popular Question to HS ▴ 10
Popular Question to DevelopingHippo • 0
Locations • All
UPF, Barcelona, Spain, 5 minutes ago
Canada, 8 minutes ago
Barcelona/Universitat Pompeu Fabra, 9 minutes ago
India, 13 minutes ago
United States, 17 minutes ago
Traffic: 776 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6