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rnaseqpower
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Are unequal sample sizes in differential gene expression (DGE) analysis a problem for edgeR, DESeq2, and NOISeq? Could you give me some advice on how…
RNA
RNASeqPower
DEGseq
written 11 months ago by
Jonathan
• 0
1
vote
3
replies
1.7k
views
featureCounts fails to load annotation file
featurecounts
rnas
RNASeqPower
12 months ago
yasmin.hilliam
▴ 10
2
votes
2
replies
714
views
Batch adjustment for cohort based RNA seq data
RNASeqPower
removeBatchEffect
cpm
Batcheffect
13 months ago
sukeshinik5
▴ 20
1
vote
2
replies
1.1k
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RNASeq time course analysis, missing time points for control
RNASeqData
RnaSeqSampleSize
RNASeq
RNASeqPower
22 months ago
drewhaydensteele
• 0
0
votes
1
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1.0k
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Comparing RNASeq data from multiple studies
RNASeqData
RnaSeqSampleSize
RNASeqPower
RNASeq
updated 2.0 years ago by
Basti
▴ 780 • written 2.1 years ago by
Luke
• 0
1
vote
3
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1.5k
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Is it okay to increase filtering to get more significant Adjusted P Values for DEGs found using Limma?
RNASeqPower
edgeR
DifferentialExpression
limma
RNASeq
updated 2.5 years ago by
Gordon Smyth
53k • written 2.5 years ago by
Sara
• 0
0
votes
0
replies
769
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Typo in citation for RNASeqPower
RNASeqPower
citation
3.3 years ago
stephenjjohnson
• 0
0
votes
3
replies
3.1k
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How to calculate coefficient of variation within group?
edgeR
limma
RNASeqPower
updated 3.7 years ago by
Gordon Smyth
53k • written 4.6 years ago by
Ahdee
▴ 60
0
votes
5
replies
2.9k
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getting sample size for RNAseq experiment
rnaseqpower
sspa
sample size
sequencing
complex-design
updated 9.7 years ago by
m.van_iterson
▴ 20 • written 9.7 years ago by
roser.navarro
• 0
0
votes
1
reply
1.5k
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Depth or # of reads for RNASeqPower
rnaseqpower
11.0 years ago
drnknmstrr
• 0
0
votes
0
replies
1.3k
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Power Calculation of multiple factors design of RNA-sequencing study
edgeR
DESeq
RNASeqPower
edgeR
DESeq
RNASeqPower
11.7 years ago
Guest User
★ 13k
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
That's weird. Using the example data works for me. ``` > example(read10xCounts) rd10xC> # Mocking up some 10X genomics output. rd10xC> ex…
Comment: Join BOC Sciences at Drug Discovery Chemistry
by
teamardigen
• 0
Sounds like an exciting event for anyone passionate about small molecule innovation. The focus on discovery and optimization really drives …
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
I am, but perhaps I'm not understanding how it should work. > sse = DropletUtils::read10xCounts(curr_files[1], mtx.class = 'SVT_Sparse…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
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Join BOC Sciences at Drug Discovery Chemistry
Drug datasets for RNA-seq
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
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