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ihw
•
reset
2
votes
4
replies
2.0k
views
Filtering after DESeq
DESeq2
IHW
written 9 months ago by
caroline.zanchi
▴ 10
0
votes
3
replies
1.4k
views
IHW for multiple regression
IHW
updated 3.0 years ago by
Wolfgang Huber
★ 13k • written 3.2 years ago by
Tyson
• 0
1
vote
3
replies
1.5k
views
Why are padj results different for BetaPrior = TRUE vs lfcShrink()?
IHW
lfcShrink
DESeq2
3.8 years ago
Ali Barry
▴ 40
3
votes
2
replies
1.9k
views
Ashr and IHW
Ashr
LFCShrinkage
IHW
DESeq2
4.1 years ago
Bex
• 0
3
votes
3
replies
1.5k
views
IHW: retain annotation columns in data when running `ihw(pvalue ~ covariate, data = ...)`
ihw
independent hypothesis weighting
5.8 years ago
david.laehnemann
▴ 10
2
votes
4
replies
1.7k
views
DESeq2 - problem with inferring correct results.
deseq2
rnaseq
sva
fdrtool
ihw
updated 6.0 years ago by
Michael Love
43k • written 6.0 years ago by
rihards.saksis
• 0
0
votes
2
replies
1.3k
views
DESeq2 and data.table impacted by IHW and lpsymphony
lpsymphony
IHW
updated 6.2 years ago by
Mike Smith
★ 6.6k • written 6.3 years ago by
mattjdowle
• 0
1
vote
2
replies
1.5k
views
Does DESeq2 need to correct for overlapping regions?
deseq2
ihw
updated 6.4 years ago by
Michael Love
43k • written 6.4 years ago by
schwarzl
• 0
1
vote
2
replies
1.5k
views
IHW scale of problem
ihw
p-value
multiple hypothesis
updated 6.7 years ago by
Wolfgang Huber
★ 13k • written 6.7 years ago by
xiaotong.yao23
▴ 10
2
votes
3
replies
1.7k
views
lpsymphony will not build
ihw
6.8 years ago • updated 6.7 years ago
caldodge
▴ 20
0
votes
2
replies
1.2k
views
Adjusting DESeq2 p-values through IHW using pathway information as covariate
IHW
deseq2
Pathway
updated 6.9 years ago by
Michael Love
43k • written 6.9 years ago by
guidobarzaghi
▴ 20
5
votes
6
replies
2.3k
views
DESeq2 w. pathway/network info as a prior knowledge
deseq2
pathway
ihw
updated 7.0 years ago by
Michael Love
43k • written 7.0 years ago by
guidobarzaghi
▴ 20
8
votes
2
replies
1.5k
views
Does IHW use the supplied alpha for the correction calculations?
IHW
deseq2
updated 7.0 years ago by
Nikos Ignatiadis
▴ 180 • written 7.0 years ago by
k.vitting.seerup
▴ 120
1
vote
4
replies
2.0k
views
IHW multiple testing correction
IHW
multiple testing correction
covariate distribution
updated 7.2 years ago by
Wolfgang Huber
★ 13k • written 7.2 years ago by
lara.h.urban
• 0
1
vote
3
replies
2.0k
views
IHW and correlated covariates
ihw
9.2 years ago • updated 4.6 years ago
Michael Love
43k
0
votes
6
replies
2.3k
views
Defining subsets for FDR correction
fdr
deseq2
ihw
updated 7.7 years ago by
Michael Love
43k • written 7.7 years ago by
sven.schenk
▴ 30
1
vote
3
replies
2.0k
views
Libgomp error in IHW
ihw
updated 7.9 years ago by
vladislav.kim
▴ 10 • written 7.9 years ago by
Kipper Fletez-Brant
▴ 150
2
votes
2
replies
1.9k
views
how to specify the number of cores used by IHW
IHW
lpsymphony
updated 8.3 years ago by
vladislav.kim
▴ 10 • written 8.4 years ago by
Charlotte Soneson
▴ 170
5
votes
1
reply
1.9k
views
IHWpaper: choice of `nbins=4` in `proteomics_example_analysis.R`
ihw
updated 8.7 years ago by
Nikos Ignatiadis
▴ 180 • written 8.7 years ago by
paul.johnston
▴ 10
1
vote
4
replies
2.3k
views
IHW Package for R 3.2.5
deseq2
ihw
8.8 years ago
bekah
▴ 40
1
vote
2
replies
2.6k
views
How to use 'IHW' package to filter genes?
ihw
deseq2
edger
limma voom
updated 9.0 years ago by
Bernd Klaus
▴ 610 • written 9.0 years ago by
tofukaj
• 0
10
votes
2
replies
1.8k
views
Possible to incorporate the sign or direction of an effect in the IHW covariate?
IHW
updated 9.8 years ago by
Nikos Ignatiadis
▴ 180 • written 9.8 years ago by
dhibar
▴ 60
22 results • Page
1 of 1
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Replies
Comment: soGGi error
by
shepherl
4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA
by
Gordon Smyth
53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results
by
Tikaaa2sahaaaq2c
• 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
Comment: using limma trend workflow in CAMERA
by
A.Barden
▴ 20
Do you need to set trend.var=TRUE when using camera in the limma-voom pipeline with RNA-Seq data (as apposed to limma-trend pipeline)?
Comment: Upcoming Ensembl API and data access changes - new blog post available
by
Tikaaa2sahaaaq2c
• 0
Just as the Ensembl team transitions to a new platform for streamlined data access, diners can benefit from a digital newks menu prices con…
Votes
Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
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