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0
votes
0
replies
1.2k
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[EBSEQ] Strange NA values
ebseq
differential gene expression
9.5 years ago
jean.keller
▴ 10
0
votes
2
replies
3.0k
views
Error in for 'x' has a zero dimension WGCNA
R
wgcna
9.5 years ago
christopher.clarskon15
▴ 20
2
votes
1
reply
4.4k
views
Gviz : adapt track height
gviz
track
height
updated 9.5 years ago by
florian.hahne@novartis.com
★ 1.6k • written 9.5 years ago by
Nicolas Rosewick
▴ 20
1
vote
33
replies
6.4k
views
minfi failed positions in EPIC array
minfi
illuminahumanmethylationepicanno.ilmn10b.hg19
9.5 years ago
Giovanni Calice
▴ 160
3
votes
4
replies
2.8k
views
ChIPseeker::vennplot() fails with Error in ss[[1]] : subscript out of bounds
chipseeker
venn
vennplot
genomicranges
granges
9.5 years ago
enricoferrero
▴ 680
0
votes
5
replies
5.9k
views
Ensembl identifiers mapping to Gene Symbol
org.Hs.eg.db
9.5 years ago
maedakus
▴ 10
4
votes
6
replies
2.2k
views
Characterization of simultaneous transcription factors over expression
deseq2
factominer
PCA
updated 9.5 years ago by
Ryan C. Thompson
★ 7.9k • written 9.5 years ago by
sebastiano.curreli
• 0
0
votes
4
replies
5.1k
views
org.Hs.eg.db - hg38 build?
org.hs.eg.db
updated 9.5 years ago by
Keith Hughitt
▴ 180 • written 9.5 years ago by
Brian Smith
▴ 120
0
votes
3
replies
1.8k
views
Sequence Context of Somatic Variants
somaticsignatures
mutation context
updated 9.5 years ago by
Julian Gehring
★ 1.3k • written 9.5 years ago by
arsala521
▴ 10
3
votes
2
replies
3.8k
views
Error building R Markdown v2 document
biocstyle
updated 9.5 years ago by
Martin Morgan
25k • written 9.5 years ago by
kevin.rue
▴ 350
3
votes
4
replies
10k
views
DESeqDataSetFromMatrix giving error: "argument must be coercible to non-negative integer"
DESeqDataSet
DESeqDataSetFromMatrix
rnaseq
deseq2
9.5 years ago
ErickF
▴ 40
2
votes
32
replies
7.0k
views
Gviz error 'Expectation Failed'
gviz
ucsc
9.6 years ago • updated 9.5 years ago
Tom
▴ 10
1
vote
6
replies
2.2k
views
DESEQ2 blocking design doesn't match expectation !
deseq2
block
pca
9.5 years ago
akp
• 0
1
vote
1
reply
2.1k
views
How to randomly sample bam files obtaining a subset of information (ex: binning locations)
genomicfiles
rsamtools
updated 9.5 years ago by
Martin Morgan
25k • written 9.5 years ago by
victoriaccorey
▴ 10
4
votes
3
replies
3.4k
views
Problem with summarizeOverlaps() when reading >1 BAM file: "stop worker failed"
summarizeoverlaps
rnaseq
bplapply
rangedsummarizedexperiment
read counting
9.5 years ago
ErickF
▴ 40
2
votes
11
replies
2.5k
views
Adjusting for confounders along with paired testing using edgeR
edgeR
paired samples
confounders
model.matrix
updated 9.5 years ago by
Ryan C. Thompson
★ 7.9k • written 9.5 years ago by
manasishah86
▴ 30
0
votes
3
replies
1.6k
views
Error while using minfi for EPIC array data
minfi
updated 9.5 years ago by
Kasper Daniel Hansen
★ 6.5k • written 9.5 years ago by
Biologist
▴ 120
2
votes
5
replies
3.4k
views
Question on how to proceed and analyze 9 microarray datasets of two different platforms to perform meta-analysis
microarray
meta-analysis
cross-platform normalization
statistical inference
updated 9.5 years ago by
alexvpickering
▴ 110 • written 10.0 years ago by
Konstantinos Yeles
▴ 90
0
votes
1
reply
1.5k
views
Error with IlluminaHumanMethylation450Kmanifest when trying to run ChAMP
ChAMP
illuminahumanmethylation450kmanifest
updated 9.5 years ago by
chaoqiang.lai
• 0 • written 9.6 years ago by
bohao.liu
• 0
1
vote
1
reply
1.3k
views
Bug Report/Question for PureCN: createSNPBlacklist() Error
PureCN
updated 9.5 years ago by
markus.riester
▴ 130 • written 9.5 years ago by
klminch
▴ 10
0
votes
1
reply
6.6k
views
problem with ropls library (OPLS-DA)
ropls
updated 9.5 years ago by
etienne.thevenot
▴ 40 • written 9.5 years ago by
dominik.guggisberg
• 0
3
votes
4
replies
4.3k
views
interactive networks from WGCNA clusters
wgcna
rcytoscape
updated 9.5 years ago by
branislav misovic
▴ 120 • written 9.5 years ago by
christopher.clarskon15
▴ 20
0
votes
2
replies
1.5k
views
Runing into error while trying GRanges from R
rnaseq
bumphunter
genomicranges
9.5 years ago
alva.james
• 0
0
votes
1
reply
1.4k
views
CustomproDB JunctionType function
customprodb
updated 9.5 years ago by
xiaojing.wang
▴ 50 • written 9.5 years ago by
georges.bedran
• 0
0
votes
2
replies
1.3k
views
vcf intersection variantannotation
variantannotation
updated 9.5 years ago by
Michael Lawrence
★ 11k • written 9.5 years ago by
ribioinfo
▴ 100
2
votes
2
replies
1.7k
views
Anyone know how to make a plot like this - I don't even know what it's called.
plot
ggplot2
updated 9.5 years ago by
WouterDeCoster
▴ 130 • written 9.5 years ago by
clairelsimpson
▴ 10
0
votes
1
reply
4.2k
views
GOstats - Error in order(pvals) : argument 1 is not a vector
bioconductor
r
gostats
updated 9.5 years ago by
James W. MacDonald
68k • written 9.5 years ago by
sarajdcardoso
• 0
0
votes
3
replies
1.5k
views
[FourCSeq] plotDifferences and plotZscores
fourcseq
9.6 years ago • updated 9.5 years ago
fidlay
• 0
0
votes
2
replies
2.0k
views
Getting "error: database is corrupt" when using ExperimentHub()
experimenthub
gse62944
updated 9.5 years ago by
Valerie Obenchain
★ 6.8k • written 9.5 years ago by
shinx558
• 0
4
votes
5
replies
3.1k
views
edgeR- DE analysis with no replicates
edger
differential gene expression
without replicate
nested design
help
updated 9.5 years ago by
Aaron Lun
★ 29k • written 9.5 years ago by
knipehf
• 0
0
votes
0
replies
1.6k
views
Job:
Bioinformatician / Statistician Position - Ref.: 2016/45 - in Badalona, Barcelona, Spain
ngs
microarray
bioinformatician job
Job
9.5 years ago
Lauro Sumoy
▴ 10
0
votes
1
reply
819
views
Cell proportions in estimateCellCounts()
minfi
updated 9.5 years ago by
Kasper Daniel Hansen
★ 6.5k • written 9.5 years ago by
adom877
• 0
4
votes
10
replies
10k
views
How can I extract sequences from a FASTA file for each of the intervals defined in a BED file using R?
R
bioconductor
granges
9.9 years ago • updated 9.5 years ago
pertille
• 0
0
votes
3
replies
2.5k
views
DESeq2 time course experiments for multigroups comparison (>2 groups)
DESeq2
Time course
RNA-seq
updated 9.5 years ago by
Michael Love
43k • written 9.5 years ago by
CandiceChuDVM
▴ 40
2
votes
1
reply
1.2k
views
edgeR - testing interaction in a scenario of 2 tissues and 2 ages
edgeR
R
differential gene expression
differential expression
updated 9.5 years ago by
Aaron Lun
★ 29k • written 9.5 years ago by
kobipe3
• 0
4
votes
1
reply
1.5k
views
Is it valid to use only genes of interest before eBayes step in limma?
limma
genefilter
updated 9.5 years ago by
Aaron Lun
★ 29k • written 9.5 years ago by
minabashir
• 0
0
votes
3
replies
2.7k
views
Standard errors of fitted values from glmFit in edgeR
edger
standard error
glmfit
9.5 years ago
david.hughes
• 0
0
votes
1
reply
1.4k
views
What happends with a package in submission through the old issue tracker?
github
package submission
rDGIdb
issue tracker
updated 9.5 years ago by
Martin Morgan
25k • written 9.5 years ago by
Thomas Thurnherr
• 0
3
votes
4
replies
2.3k
views
Trying to account for gene length in topGO analysis
topgo
goseq
deseq2
updated 9.5 years ago by
Bernd Klaus
▴ 610 • written 9.5 years ago by
Ben Mansfeld
• 0
6
votes
5
replies
1.8k
views
limma & design matrix: for 2-color dyes and 4-comparisons?
limma
microarray
limma design matrix
updated 9.5 years ago by
Gordon Smyth
53k • written 9.5 years ago by
Mehmet Ilyas Cosacak
• 0
0
votes
0
replies
1.5k
views
Illumina Genotyping in parallel raise an error
crlmm
snp
illumina
9.5 years ago
nadne
▴ 10
1
vote
4
replies
3.4k
views
Bioconductor docker images without Rstudio-server?
docker
updated 9.5 years ago by
Dan Tenenbaum
★ 8.2k • written 10.1 years ago by
Thomas Sandmann
▴ 90
2
votes
4
replies
1.6k
views
ResrtingTools include pvalue NA
reportingtools
deseq2
NA
pvalue
updated 9.5 years ago by
Michael Love
43k • written 9.5 years ago by
NMostajo
▴ 10
15
votes
4
replies
3.8k
views
Using multiple tools for differential gene expression analysis as validation
edger
limma
deseq2
rnaseq
updated 9.5 years ago by
Ryan C. Thompson
★ 7.9k • written 9.5 years ago by
WouterDeCoster
▴ 130
0
votes
1
reply
1.1k
views
I want to submit a package to Bioconductor by Github. But it always comes out an inexplicable problems
package
updated 9.5 years ago by
Martin Morgan
25k • written 9.5 years ago by
taosheng.x
• 0
0
votes
1
reply
1.6k
views
problem loading gwascat and ggbio
gwascat
ggbio
Mac
9.5 years ago
jameshunterbr
• 0
0
votes
0
replies
1.8k
views
no method for coercing this S4 class to a vector
mclust
s4vectors
S4
as.matrix
.FCS
9.5 years ago
anara92
• 0
0
votes
2
replies
1.6k
views
vcf to vranges
readvcfasvranges
vcf to vranges
updated 9.5 years ago by
Valerie Obenchain
★ 6.8k • written 9.5 years ago by
arsala521
▴ 10
0
votes
1
reply
1.2k
views
diffHiC statistical test to check differences between conditions
diffHiC
statistical test
updated 9.5 years ago by
Aaron Lun
★ 29k • written 9.5 years ago by
lazaris
• 0
0
votes
0
replies
1.2k
views
sigcheck 'clear_cluster' receive data failed error
sigchek
software error
9.5 years ago
Shamim Sarhadi
▴ 20
46,711 results • Page
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Comment: Ensembl plants at annotationHub?
by
jwp48
• 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa
by
Gordon Smyth
53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures
by
ferran.llobet.cabau
▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub?
by
Guido Hooiveld
★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
jtsy6383
• 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
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