Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
0
votes
0
replies
579
views
Unable to create VariantExperiment object from VCF
VariantExperiment
3.3 years ago
chase.mateusiak
• 0
0
votes
0
replies
556
views
Analyzing peptide library diversity
#diversity
updated 3.3 years ago by
shepherl
4.2k • written 3.3 years ago by
Sara
• 0
0
votes
0
replies
885
views
Prepare data frame of 3 column-lists or matrix of three-column lists from VCF or BAM files
BAM
Segmentation
CINdex
VCF
Data
3.3 years ago
raven1306
• 0
0
votes
1
reply
1.0k
views
rtracklayer import only subset of ranges
rtracklayer
updated 3.3 years ago by
shepherl
4.2k • written 3.3 years ago by
Jake
▴ 90
0
votes
0
replies
834
views
Filtering single-channel Affymetrix probes
filtering
probe
MicroarrayData
3.3 years ago
Fatemeh
• 0
1
vote
2
replies
1.5k
views
conditional command within GRanges
SummarizedExperiment
updated 3.3 years ago by
Marcel Ramos
700 • written 3.3 years ago by
Marcus
• 0
1
vote
1
reply
4.3k
views
How should I set my eps value in cluster profiler?
clusterProfiler
updated 3.3 years ago by
Guido Hooiveld
★ 4.1k • written 3.3 years ago by
ummscr
• 0
0
votes
0
replies
795
views
Free Gibbson energy RNA doublex
GeneExpression
RNAinteract
3.3 years ago
Tamina
• 0
1
vote
0
replies
864
views
How can I properly decode error when using ASICS?
ASICSdata
ASICS
3.3 years ago
nep63
▴ 10
0
votes
0
replies
882
views
Argument is of length zero in variancePartition/Dream
expression
variancePartition
edgeR
3.3 years ago
Jonathan
• 0
1
vote
1
reply
1.2k
views
GSEA with Wikipathways not entirely reproducible
clusterProfiler
updated 3.3 years ago by
Guido Hooiveld
★ 4.1k • written 3.3 years ago by
Susana
• 0
0
votes
0
replies
842
views
DEXSeq aggregated genes/exons result in NA values
RNASeq
R
DEXSeq
3.3 years ago
osieman52
• 0
0
votes
0
replies
994
views
biomaRt, Ensembl, retrieve "Phenotypes" information
Ensembl
biomaRt
3.4 years ago
Hector
• 0
0
votes
0
replies
1.0k
views
A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation
wateRmelon
Computation
minfi
3.4 years ago
calen.p.ryan
• 0
1
vote
2
replies
1.4k
views
DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscript out of bounds"
DEXSeq
3.4 years ago
Delta._.43
▴ 20
1
vote
0
replies
886
views
Normalization RNA-seq data maSigPro
maSigPro
3.4 years ago
W.a.m.dekker
▴ 10
1
vote
0
replies
1.1k
views
Statistical test for genomic annotation by ChIPseeker
statistics
PeakAnnotation
ChIPseeker
GuangchuangYu
3.4 years ago
arisarkar88
▴ 40
0
votes
2
replies
1.5k
views
OPLS-DA: confidence interval for accuracy metric
Metabolomics
3.4 years ago • updated 3.3 years ago
Eddie
• 0
0
votes
1
reply
1.1k
views
Issue installing DEP package
DEP
updated 3.4 years ago by
shepherl
4.2k • written 3.4 years ago by
dheeraj.raya
• 0
0
votes
0
replies
810
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
3.4 years ago
04.marshal-decibel
• 0
0
votes
3
replies
2.8k
views
I cannot install "microbiome"
GenomeInfoDbData
microbiome
phyloseq
updated 3.3 years ago by
Marcel Ramos
700 • written 3.4 years ago by
kikiki
• 0
0
votes
1
reply
1.9k
views
error in function useDataset of biomaRt
bioma
biomaRt
updated 3.4 years ago by
Basti
▴ 780 • written 3.4 years ago by
Riley Qiu
• 0
0
votes
3
replies
1.6k
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST
ROntoTools
KEGG
KEGGgraph
3.4 years ago
abf
▴ 30
1
vote
5
replies
1.9k
views
batch effect
TargetScoreData
batchelor
written 3.4 years ago by
Syed Zaheer
▴ 10
0
votes
2
replies
1.5k
views
Rsubread align --R session aborts
RNA
Alignment
Rsubread
3.4 years ago • updated 3.3 years ago
sreekalasn
• 0
0
votes
0
replies
624
views
Can I loosely say that a gene is expressed by simply look at the gene count from RNA-Seq?
RNASeqData
RNASeq
3.4 years ago
Pang
• 0
0
votes
1
reply
1.9k
views
Error in running: classifySingleR from SingleR package
SingleR
SingleCell
updated 3.4 years ago by
ATpoint
★ 5.0k • written 3.4 years ago by
amit.korngut
• 0
0
votes
2
replies
694
views
MAAPER
MAAPER
updated 3.4 years ago by
ATpoint
★ 5.0k • written 3.4 years ago by
Sasha
• 0
0
votes
1
reply
851
views
APAanalyzer
APAlyzer
3.4 years ago
Sasha
• 0
0
votes
3
replies
1.2k
views
Can I create my own, private ExperimentHub instance?
ExperimentHub
3.4 years ago • updated 3.3 years ago
sandmann.t
▴ 70
0
votes
0
replies
1.6k
views
Boxplot annotation per cluster and column using ComplexHeatmap
ComplexHeatmap
3.4 years ago
gdeniz
• 0
0
votes
1
reply
1.4k
views
DMRfinder findDMRs.r Error - Argument is of length zero
DSS
DMRcaller
updated 2.6 years ago by
Noelia
• 0 • written 3.4 years ago by
Claire
• 0
0
votes
0
replies
585
views
multiple widths using motifmatchr
motifmatchr
3.4 years ago
ltb47
• 0
0
votes
0
replies
838
views
MM-GS plot doesn't show any negative correlation
wgcna
3.4 years ago
shubhankar.pawar
• 0
0
votes
2
replies
1.4k
views
IsoformSwitchAnalyzeR package on mouse data
rnaseq
IsoformSwitchAnalyzeR
updated 3.3 years ago by
k.vitting.seerup
▴ 120 • written 3.4 years ago by
Ryan
• 0
0
votes
1
reply
883
views
Can I force flowStats::quadrantGate to pick a separation point on the upper side of a signal distribution?
flowStats
quadrantGate
3.4 years ago
Christopher
• 0
0
votes
0
replies
1.3k
views
About normalization of the datasets from Harmonized TCGA data
TCGAbiolinks
Proteomics
GENOMICS
bioinformatics
3.4 years ago
qiz218591
• 0
1
vote
7
replies
3.5k
views
Error with slingshot slingPseudotime and slingCurveWeights after using fitGAM from tradeSeq
tradeSeq
slingshot
3.4 years ago
manduchi
▴ 10
0
votes
1
reply
1.1k
views
Regarding Installation of GEOquery
BiocManager
installation
GEOquery
updated 3.4 years ago by
Basti
▴ 780 • written 3.4 years ago by
surinder.chd90
• 0
0
votes
0
replies
1.0k
views
TCGAbiolinks file.type argument
TCGAbiolinks
3.4 years ago
Elizabeth
• 0
0
votes
0
replies
965
views
Displaying large image stacks (e.g. from multiplexed immunohistochemistry) using shiny and EBImage
shiny
EBImage
3.4 years ago
Wolfgang Huber
★ 13k
0
votes
3
replies
7.6k
views
ridgeplot doesn't work: Error in ans[ypos] <- rep(yes, length.out = len)[ypos] : replacement has length zero
clusterProfiler
updated 3.2 years ago by
mttrantrietminh
• 0 • written 3.4 years ago by
Y.K
• 0
0
votes
0
replies
780
views
biomaRt, Ensembl, adding new "phenotype_source"
biomaRt
3.4 years ago
Hector
• 0
0
votes
0
replies
927
views
Plotting a line plot for genes across 4-species
RNAseq123
3.4 years ago
Mohamed
▴ 30
0
votes
3
replies
1.9k
views
cn.mops segmentation error
cn.mops
updated 3.3 years ago by
gpovysil
• 0 • written 3.4 years ago by
jacorvar
▴ 40
0
votes
0
replies
822
views
Negative Q2Y
Metabolomics
3.4 years ago
Eddie
• 0
0
votes
0
replies
967
views
MetaVolcanoR usage
limma
MetaVolcanoR
EnhancedVolcano
3.4 years ago
JAcky
• 0
0
votes
0
replies
806
views
Filtering references to a taxa
brendaDb
3.4 years ago
Lluís Revilla Sancho
▴ 760
0
votes
0
replies
1.0k
views
Plot of variable importance
Metabolomics
3.4 years ago
Eddie
• 0
0
votes
0
replies
653
views
gscreend: Multiple T0 replicates
gscreend
3.4 years ago
pk_labrador
• 0
1,000 results • Page
19 of 20
Recent ...
Replies
Answer: NUPOP usage
by
shepherl
4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker?
by
fnfgame
• 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes
by
Erik Wright
▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Michael Love
43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment
by
Michael Love
43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
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
Awards
• All
Popular Question
to
Gordon Smyth
53k
Popular Question
to
Michael Love
43k
Popular Question
to
Luca
• 0
Popular Question
to
Lluís Revilla Sancho
▴ 760
Popular Question
to
James W. MacDonald
68k
Locations
• All
United States,
6 minutes ago
United States,
13 minutes ago
WEHI, Melbourne, Australia,
19 minutes ago
United States,
58 minutes ago
United States,
1 hour ago
Traffic: 1023 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6