Showing : bumphunter • reset
0
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9
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1.1k
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clarification about bumphunter value output
minfi bumphunter
written 3.4 years ago by • 0
0
votes
4
replies
171
views
Fix regions for bumphunter
bumphunter DMR methylation minfi
18 months ago • updated 17 months ago i.s.brorson • 0
0
votes
2
replies
156
views
Bumphunter output "regions" of 1 probe (L =1)
DMR bumphunter EPIC chip
17 months ago i.s.brorson • 0
0
votes
1
reply
274
views
Error:package or namespace load failed for 'bumphunter': object "path" is not exported by namespace:Rsamtools
minfi bumphunter Rsamtools
2.1 years ago Boran Gao • 0
2
votes
4
replies
439
views
bumphunter stalls on "Smoothing coefficients"
bumphunter ChAMP
updated 2.2 years ago by ▴ 240 • written 2.2 years ago by ▴ 10
6
votes
5
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480
views
dmrseq installation failed
installation problem dmrseq bumphunter
updated 2.7 years ago by 2.8k • written 2.7 years ago by ▴ 10
0
votes
3
replies
1.2k
views
Dependency installation error due to no longer available CRAN packages ('rngtools', 'pkgmaker')
installation minfi bumphunter
updated 3.2 years ago by ▴ 470 • written 3.2 years ago by • 0
2
votes
6
replies
740
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 3.2 years ago by ▴ 120 • written 3.2 years ago by • 0
0
votes
1
reply
574
views
Bumphunter error: subscript out of bounds
bumphunter DMR doparallel multicore
3.2 years ago arce.domingo.1407 • 0
1
vote
5
replies
1.2k
views
Meaning of the value column in bumphunter output (minfi package)
minfi bumphunter
updated 3.4 years ago by • 0 • written 4.2 years ago by • 0
0
votes
0
replies
604
views
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
s4vectors bumphunter txdb.hsapiens.ucsc.hg38.knowngene
3.8 years ago Leonardo Collado Torres ▴ 900
2
votes
8
replies
2.2k
views
"minfi" loading problem because of couldn't "bumphunter" load
bumphunter minfi loading error rtracklayer
updated 4.2 years ago by • 0 • written 4.2 years ago by ▴ 10
1
vote
3
replies
810
views
coef in dmrcate
dmrcate bumphunter methylation epic
updated 4.3 years ago by 57k • written 4.3 years ago by ▴ 10
0
votes
3
replies
1.0k
views
Controlling for confounding variables in bumphunter
minfi bumphunter confounders
updated 4.4 years ago by 57k • written 4.4 years ago by • 0
0
votes
1
reply
931
views
"Error in NSBS - subscript contains NAs or out-of-bounds indices" for bumphunter `matchGenes`
bumphunter
4.4 years ago jon.barenboim • 0
0
votes
0
replies
861
views
bumphunter P values and significance testing
minfi bumphunter
4.4 years ago cardenasca ▴ 40
4
votes
4
replies
1.7k
views
bumphunter output clarification: p values achieved with b=1000: further correction needed?
methylation dmr analysis bumphunter
updated 4.6 years ago by 57k • written 4.6 years ago by • 0
1
vote
4
replies
2.1k
views
bumphunter output clarification
bumphunter DMR DMR analysis minfi bioconductor
updated 4.6 years ago by ▴ 60 • written 4.6 years ago by • 0
0
votes
4
replies
1.2k
views
Using Bumphunter and SVA together in Minfi: bumphunterEngine nullMethod warning and FWER calculations
minfi sva bumphunter
4.7 years ago • updated 4.6 years ago brhead ▴ 40
6
votes
2
replies
2.7k
views
Plotting Differentially Methylated Regions
minfi bumphunter 450k region
updated 4.6 years ago by ▴ 70 • written 5.4 years ago by ▴ 40
0
votes
0
replies
551
views
Bumphunter Algorithm Returns Regions with very few CpGs
bumphunter minfi
4.8 years ago graggsd • 0
2
votes
6
replies
756
views
bumphunter of multi covariates
bumphunter
5.0 years ago • updated 4.9 years ago Asma rabe ▴ 290
0
votes
3
replies
626
views
minfi devel error
bumphunter
updated 5.1 years ago by 25k • written 5.1 years ago by ▴ 290
0
votes
2
replies
593
views
Runing into error while trying GRanges from R
rnaseq bumphunter genomicranges
5.1 years ago alva.james • 0
0
votes
1
reply
610
views
error when using bumphunter package with illumina 450k data
minfi bumphunter DNA methylation illumina450k
updated 5.1 years ago by 57k • written 5.1 years ago by • 0
1
vote
9
replies
1.7k
views
bumphunter beta values
methylation minfi bumphunter
updated 5.3 years ago by 57k • written 5.3 years ago by ▴ 40
0
votes
0
replies
602
views
How to retrieve the (smoothed) baseline values from the bumphunting output object?
bumphunter
5.5 years ago fabian.schroeder • 0
1
vote
2
replies
2.3k
views
minfi, bumphunter + complex experimental design, and 3 other 450K queries
GO convert minfi bumphunter GO convert minfi bumphunter
updated 5.5 years ago by ▴ 20 • written 7.2 years ago by ★ 3.0k
0
votes
3
replies
1.2k
views
Paired samples and interactions models with bumphunter?
minfi bumphunter design and contrast matrix paired samples limma
5.5 years ago david.watson ▴ 20
1
vote
0
replies
684
views
News: Bug found and fixed in bumphunter's bootstrap method
bumphunter News
5.8 years ago rafa ▴ 60
3
votes
5
replies
1.2k
views
Complex Model Design with Bumphunter (Minfi)
minfi bumphunter model.matrix linear model
6.1 years ago • updated 6.0 years ago andrew.j.skelton73 ▴ 340
0
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0
replies
538
views
Bumphunter Output Details
bumphunter
6.3 years ago andrew.j.skelton73 ▴ 340
4
votes
10
replies
1.7k
views
Using bumphunter with non-human genomes
bumphunter
updated 6.5 years ago by ▴ 900 • written 6.7 years ago by ▴ 40
3
votes
5
replies
1.3k
views
bumphunter::annotateNearest with non-human genome
bumphunter
updated 6.5 years ago by ▴ 900 • written 6.7 years ago by ▴ 40
2
votes
1
reply
1.2k
views
News: Changes to matchGenes in bumphunter
annotation bumphunter News
updated 6.6 years ago by 33k • written 6.6 years ago by ▴ 60
0
votes
3
replies
1.3k
views
smoothing function in bumphunter in minfi
minfi bumphunter minfi bumphunter
7.1 years ago Kasper Daniel Hansen 6.5k
0
votes
1
reply
1.1k
views
loessByCluster returning error in smooth function in bumphunter
bumphunter bumphunter
7.2 years ago Jiayi Sun ▴ 40
0
votes
0
replies
882
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
7.2 years ago swarmqq@gmail.com ▴ 10
2
votes
1
reply
1.2k
views
smoothing function in bumphunter in minfi
minfi bumphunter minfi bumphunter
updated 7.2 years ago by 6.5k • written 7.2 years ago by ★ 12k
0
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5
replies
2.5k
views
doParallel with Bumphunter gives Error in mcfork()
minfi bumphunter minfi bumphunter
updated 7.3 years ago by ★ 4.2k • written 7.3 years ago by ★ 12k
0
votes
0
replies
1.1k
views
DMR identification: minfi speed, memory problems
Annotation convert minfi methyAnalysis bumphunter Annotation convert minfi methyAnalysis
7.4 years ago Allegra Petti ▴ 120
0
votes
6
replies
2.0k
views
DMR identification: minfi speed, memory problems
Annotation convert minfi methyAnalysis bumphunter Annotation convert minfi methyAnalysis
updated 7.4 years ago by 57k • written 7.4 years ago by ★ 12k
0
votes
12
replies
1.8k
views
bumphunter DMRs difficulties
PROcess minfi bumphunter PROcess minfi bumphunter
updated 7.4 years ago by 6.5k • written 7.4 years ago by ▴ 160
0
votes
3
replies
1.2k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
updated 7.5 years ago by ▴ 20 • written 7.5 years ago by ★ 4.2k
0
votes
0
replies
895
views
minfi release 1.8
SNP Annotation minfi bumphunter SNP Annotation minfi bumphunter
7.5 years ago C T ▴ 20
0
votes
2
replies
1.5k
views
minfi release 1.8
SNP Annotation minfi bumphunter SNP Annotation minfi bumphunter
updated 7.7 years ago by 6.5k • written 7.7 years ago by ▴ 30
0
votes
1
reply
952
views
minfi release 1.8
SNP Annotation minfi bumphunter SNP Annotation minfi bumphunter
updated 7.7 years ago by ▴ 30 • written 7.7 years ago by 6.5k
0
votes
5
replies
1.2k
views
bumphunter::matchGenes and all=TRUE
Annotation bumphunter Annotation bumphunter
updated 8.0 years ago by 6.5k • written 8.0 years ago by ▴ 30
0
votes
0
replies
870
views
How to format SWAN minfi data for bumphunter?
minfi bumphunter minfi bumphunter
8.1 years ago Guest User ★ 12k
0
votes
3
replies
1.1k
views
Bumphunter and minfi
genoset minfi bumphunter genoset minfi bumphunter
8.4 years ago Matthias Zilbauer ▴ 30
50 results • Page 1 of 1
Recent ...
Replies
Comment: Problems with installation of 'phyloseq by shepherl 2.8k
GenomeInfoDbData is a Bioconductor package. Please use Bioconductor installation `BiocManager::install("GenomeInfoDbData")` and report an…
Comment: Permission denied when manually installing R packages(Rhdf5lib) by Mike Smith ★ 5.0k
Did you resolve this, as you seem to have gotten further in https://support.bioconductor.org/p/9138736/ ?
Answer: Compilation fatal error: iostream.h: No such file or directory when installing R by Mike Smith ★ 5.0k
On my Ubuntu system the `iostreams.h` header is provided by the package `libstdc++9-dev`. However that package is a dependency of `g++9` a…
Comment: Compilation fatal error: iostream.h: No such file or directory when installing R by Mike Smith ★ 5.0k
No you don't need to install HDF5 via Ubuntu. The Rhdf5lib package is essentially doing this, and is designed to provide a consistent vers…
Comment: derfinder model.matrix with limma or single base-level F-statistics analysis by Konstantinos Yeles ▴ 60
Dear Leonardo, in the section ***"6.1.2 Find DERs with limma"*** of the derfinder vignette it is explained how to perform an analysis in t…
Votes
Answer: derfinder model.matrix with limma or single base-level F-statistics analysis
A: DESeq2: multiple conditions design -- How to select subset comparisons from the
Comment: Idea: Using DESeq2 to test a change in ratio of two genes
A: Normalized counts of DESeq2 affected by design formula?
A: Finding orthologous human/mouse ENSEMBL IDs
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