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isoform
•
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6
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10
replies
3.5k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma
isoform
edgeR
salmon
R
updated 12 months ago by
ATpoint
★ 5.0k • written 12 months ago by
mohammedtoufiq91
▴ 10
0
votes
0
replies
756
views
IsoformSwitchAnalyzer
Isoform
IsoformSwitchAnalyzeR
2.6 years ago
Craig
• 0
0
votes
2
replies
1.1k
views
Does the knock down cause transcriptome-wide differences in isoform usage for Pac-Bio data?
pacbio
isoform
written 3.0 years ago by
lhaiyan3
• 0
0
votes
5
replies
3.4k
views
Can Differential Isoform expression analysis can be performed using DESeq2 package
RNASeqData
isoform
DESeq2
3.7 years ago • updated 3.6 years ago
priyanka.m
• 0
0
votes
0
replies
2.0k
views
HISAT2/StringTie/Ballgown for Novel Transcript Isoform Differential Expression
isoform
RNA-seq
hisat2
stringtie
ballgown
5.2 years ago
ra711
• 0
0
votes
5
replies
2.1k
views
isoform data, deep sequencing and voom
isoform
deep sequencing
voom
updated 5.4 years ago by
Gordon Smyth
53k • written 5.4 years ago by
Ina Hoeschele
▴ 620
0
votes
4
replies
1.8k
views
mean-variance trend plots with isoform and gene-level data from tximport
tximport
isoform
voom
updated 5.4 years ago by
Gordon Smyth
53k • written 5.4 years ago by
Ina Hoeschele
▴ 620
1
vote
4
replies
2.0k
views
Identify recurrent isoform switches using IsoformSwitchAnalyzeR in multiple rectal tumor samples
cancer
Isoform
limma
IsoformSwitchAnalyzeR
updated 6.2 years ago by
k.vitting.seerup
▴ 120 • written 6.2 years ago by
asmita
• 0
1
vote
4
replies
1.7k
views
gene Isoforms quantification using RNA-seq data
gene
isoform
quantification
rna-seq
updated 6.3 years ago by
swbarnes2
★ 1.4k • written 6.3 years ago by
angel.campos
• 0
1
vote
5
replies
1.9k
views
Can DEXSeq ouput be used directly as an input for IsoformSwitchAnalyzeR
isoformswitchanalyzer
isoform
differential isoform usage
written 7.0 years ago by
A
▴ 60
0
votes
0
replies
1.3k
views
IsoformSwitchAnalyzeR error input
kallisto
differential isoform usage
isoform
8.1 years ago
ilyco
• 0
11 results • Page
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Answer: segfault in edgeR glmQLFit
by
Gordon Smyth
53k
Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. We will …
Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
aqeel
• 0
Discover the pinnacle of Brazilian Jiu Jitsu gear at [Dragon][1] GI. [1]: https://dragongi.com/
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
Gordon Smyth
53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
jtsy6383
• 0
Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…
Answer: How does contrasts.fit do in limma to extract comparisons with a model having in
by
Gordon Smyth
53k
The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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