Showing : SpikeIn • reset
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Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 5 months ago by ★ 4.8k • written 6 months ago by • 0
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2
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501
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Analysis of transcription inhibition with DESeq2
SpikeIn DESeq2 Normalization
written 8 months ago by • 0
0
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1
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736
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Problem with spike-ins (ERCC) in DESeq2 analysis after doing RUVg!
SpikeIn RUVSeq DESeq2 RUV
updated 9 months ago by 43k • written 9 months ago by • 0
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377
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Diffbind Error in socketConnection
DiffBind Errorinsocketconnection SpikeIn
12 months ago Virangika • 0
1
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2
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878
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DiffBind spike-in lib.sizes confusion
SpikeIn DiffBind
2.1 years ago Weisheng • 0
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2
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3.8k
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Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
DESeq2 SpikeIn Normalization DifferentialExpression
updated 2.2 years ago by ★ 4.8k • written 2.2 years ago by ▴ 10
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How to use spike-in information (sequences from another species) with DESeq2::DESeq()
DESeq2 SpikeIn Normalization
updated 11 months ago by • 0 • written 2.3 years ago by ▴ 10
3
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4
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2.6k
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RiP RLE normalisation using spike-in peaks in DiffBind for ChIP-seq
DiffBind SpikeIn Normalization ChIP-seq csaw
2.4 years ago • updated 2.3 years ago spg • 0
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DiffBind spike-in normalisation with varying amounts of spike-in chromatin
DiffBind ChIPSeq Normalization SpikeIn
3.6 years ago Drew • 0
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980
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Spike-In Cells for Normalization?
SpikeIn SingleCell
3.7 years ago mb1996 • 0
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2
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1.6k
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Using both spike in and TMM normalizations in ChIP-seq samples
ChIPSeq SpikeIn edgeR Normalization
3.8 years ago • updated 3.7 years ago maria.soler • 0
7
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12
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5.4k
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Using edgeR and a spike-in to calculate absolute abundance
edgeR SpikeIn RNASeq
updated 19 months ago by • 0 • written 4.2 years ago by • 0
1
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9
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Spike-in normalization in EdgeR
CUTandRUN edgeR Normalization SpikeIn ChIPSeq
updated 2.4 years ago by ▴ 670 • written 4.5 years ago by ▴ 10
13 results • Page 1 of 1
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Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0
Thank you for your reply Here are the count plots for one example CD44: normalised: ![enter image description here][1] unnormalised: !…
Comment: Discrepancies in normalised count data vs unnormalised by ATpoint ★ 4.8k
Please show examples using `plotCounts()`. Custom spreadsheets harbor the risk of parsing errors along the way which very often explains wh…
Comment: Cannot extract size factor from DESeq2 analysis by s.malik • 0
Dear Mike, using tximeta and following code, is this fine to extract normalized counts after `sizeFactors(dds)` gives NULL? `dds <- DESeq…
Comment: Design formula for circadian time-course data for vst() function by Vishnu • 0
Thank you so much for your reply.
Comment: Analyzing TnSeq data with DESeq2 by Tom • 0
[Doncaster Locksmith][1] delivers trusted, efficient security services tailored to your needs. Analyzing TnSeq data with DESeq2 may uncover…
Votes
Answer: How to combine two DESeq2 objects (dds) for analysis
How to combine two DESeq2 objects (dds) for analysis
How can I correctly use phyloseq with Docker?
A: DESeq2::sizeFactors() function does not output the sizeFactor table.
Comment: Filtering after DESeq
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