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CAGEr
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41
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Spam:
Can I cancel my British Airways flight and get a refund?
CAGEr
gep2pep
hcg110.db
9 months ago
Haggu
10
6
votes
8
replies
2.0k
views
CAGEr bug report: wrong consensus cluster results
CAGEr
updated 2.5 years ago by
Charles Plessy
▴ 180 • written 3.1 years ago by
Meng
▴ 30
0
votes
3
replies
1.5k
views
CAGEr: Problem when running getCTSS
CAGEr
updated 4.2 years ago by
Charles Plessy
▴ 180 • written 4.4 years ago by
Sergio
• 0
1
vote
2
replies
1.3k
views
CAGEexp vs CAGErseq
CAGEr
updated 4.2 years ago by
Charles Plessy
▴ 180 • written 4.8 years ago by
MatteoP
▴ 10
0
votes
0
replies
753
views
CAGEr consensusClustersDESeq2()
CAGEr
4.8 years ago
MatteoP
▴ 10
0
votes
5
replies
1.7k
views
CAGEr promoter width graph
CAGEr
updated 4.4 years ago by
Charles
• 0 • written 5.3 years ago by
leehami7407
• 0
1
vote
4
replies
1.4k
views
CAGEr quantilePositions() takes forever to run
CAGEr
quantilePositions
5.7 years ago
mirkocelii
▴ 40
1
vote
6
replies
2.0k
views
Behaviour of getCTSS on a CAGEset - extra reads?
cager
cage
ctss
updated 5.7 years ago by
Charles Plessy
▴ 180 • written 6.5 years ago by
sarac
▴ 20
1
vote
3
replies
1.3k
views
CAGEr: Quantile Values (q_0.1 and q_0.9) in CAGEset / CAGEexp objects
CAGEr
CAGEset
quantile
CAGEexp
5.7 years ago
mirkocelii
▴ 40
4
votes
6
replies
1.9k
views
CAGEr - Error with aggregateTagClusters() - invalid class IRanges object: width(x) cannot contain negative integers
CAGEr
IRanges
aggregateTagClusters
5.7 years ago
mirkocelii
▴ 40
2
votes
5
replies
2.0k
views
Does `clusterCTSS` and `aggregateTagClusters` sum raw-tag counts (and tpm) of the clustered tags into the resultant cluster?
CTSS clustering
tag per million
tag counts
CAGEr
updated 4.2 years ago by
Charles Plessy
▴ 180 • written 6.6 years ago by
regcastillo1990
• 0
0
votes
0
replies
1.4k
views
CAGEr get TSS in bed file
TSS
promoter
cage
cager
7.1 years ago
bharata1803
▴ 60
0
votes
1
reply
1.3k
views
a problem from import CTSStable in CAGEr
cager
CAGEr
7.2 years ago
Zhong JW
• 0
1
vote
2
replies
1.8k
views
error: getCTSS from CAGEexp class with removeFirstG=TRUE
cager
7.3 years ago
Pengcheng Yang
▴ 60
9
votes
18
replies
3.4k
views
bam2CTSS function error from CAGEr package
cager
7.3 years ago
Pengcheng Yang
▴ 60
4
votes
5
replies
1.8k
views
no import.bam function in CAGEr version 1.22.3
cager
7.3 years ago
Pengcheng Yang
▴ 60
1
vote
1
reply
1.3k
views
CAGEr: consensusCluster doesn't have dominant CTSS info
cager
7.6 years ago
Jingwen
▴ 10
0
votes
1
reply
1.5k
views
CAGEr - How to change plot axis range in CAGEr
BRAIN
CAGEr
BRAIN
CAGEr
updated 7.7 years ago by
Charles Plessy
▴ 180 • written 11.5 years ago by
Tobias Hohenauer
▴ 10
1
vote
1
reply
1.5k
views
clusterCTSS() error when running CAGEr
CAGEr
updated 8.3 years ago by
Charles Plessy
▴ 180 • written 8.3 years ago by
bo_yan
▴ 10
2
votes
8
replies
2.8k
views
CAGEr BAM files size issue
CAGEr
BAM
software error
R
biostrings
updated 8.4 years ago by
Charles Plessy
▴ 180 • written 8.5 years ago by
orzechowska.mag
▴ 10
4
votes
5
replies
2.8k
views
CAGEr : problem while filtering the bamFile
CAGEr
cage
updated 4.4 years ago by
jingxian.18
• 0 • written 9.9 years ago by
Vivek.b
▴ 100
0
votes
1
reply
1.4k
views
Scale Y-axis in "plotInterquantileWidth" function for an easier comparison between conditions
CAGEr
updated 11.0 years ago by
James W. MacDonald
68k • written 11.0 years ago by
calibula2000
• 0
22 results • Page
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
ja569116
• 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice
by
Gordon Smyth
53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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