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SpikeIn
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reset
0
votes
0
replies
76
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
8 days ago
Virangika
• 0
1
vote
2
replies
577
views
DiffBind spike-in lib.sizes confusion
SpikeIn
DiffBind
13 months ago
Weisheng
• 0
4
votes
2
replies
1.7k
views
Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
DESeq2
SpikeIn
Normalization
DifferentialExpression
updated 14 months ago by
ATpoint
★ 4.0k • written 14 months ago by
kalavattam
▴ 10
0
votes
1
reply
1.3k
views
How to use spike-in information (sequences from another species) with DESeq2::DESeq()
DESeq2
SpikeIn
Normalization
updated 15 months ago by
Michael Love
41k • written 15 months ago by
kalavattam
▴ 10
3
votes
4
replies
1.6k
views
RiP RLE normalisation using spike-in peaks in DiffBind for ChIP-seq
DiffBind
SpikeIn
Normalization
ChIP-seq
csaw
16 months ago • updated 15 months ago
spg
• 0
0
votes
0
replies
896
views
DiffBind spike-in normalisation with varying amounts of spike-in chromatin
DiffBind
ChIPSeq
Normalization
SpikeIn
2.5 years ago
Drew
• 0
0
votes
0
replies
695
views
Spike-In Cells for Normalization?
SpikeIn
SingleCell
2.7 years ago
mb1996
• 0
0
votes
2
replies
1.1k
views
Using both spike in and TMM normalizations in ChIP-seq samples
ChIPSeq
SpikeIn
edgeR
Normalization
2.7 years ago
maria.soler
• 0
4
votes
12
replies
3.7k
views
Using edgeR and a spike-in to calculate absolute abundance
edgeR
SpikeIn
RNASeq
updated 6 months ago by
Miguel
• 0 • written 3.2 years ago by
robert.chen
• 0
1
vote
9
replies
3.0k
views
Spike-in normalization in EdgeR
CUTandRUN
edgeR
Normalization
SpikeIn
ChIPSeq
updated 17 months ago by
Bogdan
▴ 670 • written 3.5 years ago by
Hesh
▴ 10
10 results • Page
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Comment: Error for AnnotationForge makeOrgPackageFromNCBI function
by
Gayatri
• 0
What I meant is even after deleting the NCBI.sqlite file, and re-running the script, an empty NCBI.sqlite file (0 kb) is created which is c…
Comment: DESeq2 output used for PCA plot on R studio
by
ATpoint
★ 4.0k
> Increase variability for mutants: use larger subtractive modifiers I was thinking the same as swbarnes. You're doing some data munging h…
Comment: minfi::read.metharray.exp
by
Basti
▴ 780
This is indeed correct now !
Comment: get BM error
by
Fara
• 0
Thank you for the reply. The examples are these. ENSGACG00000014473 ENSGACG00000015168 ENSGACG00000007529
Comment: get BM error
by
Mike Smith
★ 6.5k
Can you provide an example of the Ensemble IDs you're trying to convert?
Votes
Comment: get BM error
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
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