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
31
replies
4.3k
views
Error in find DEXSeq package
deseq
dexseq
9.0 years ago
engr.yahya602
• 0
1
vote
21
replies
5.1k
views
Warning: unable to access index for repository https://bioconductor.org/packages/3.11/data/annotation/bin/macosx/contrib/4.0
BiocManager
written 4.0 years ago by
Lucy
▴ 60
0
votes
21
replies
2.9k
views
How to use DECIPHER to design group-specific primers
Decipher
4.0 years ago
hoonhuiyi
• 0
34
votes
21
replies
14k
views
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
deseq2
9.6 years ago • updated 19 months ago
Michael Love
41k
0
votes
18
replies
5.8k
views
WGCNA error in network construction ?
microarray
rnaseq
7.1 years ago
m.azhar
▴ 10
0
votes
16
replies
3.1k
views
Rgraphviz installation fails
rgraphviz
6.7 years ago
Giovanni Calice
▴ 160
0
votes
16
replies
4.4k
views
Error while using buildindex for human genome
rsubread
buildindex
fasta
alignment
5.5 years ago
writetoroopali
• 0
4
votes
15
replies
6.2k
views
mzR installation error: "unable to load shared object"
mzR
installation
8.8 years ago
Eugene
• 0
0
votes
15
replies
2.7k
views
rlog not found
rlog
rlog transformation
6.0 years ago
crowsreign42
• 0
2
votes
15
replies
685
views
Problems with enrichGO
clusterProfiler
enrichGO
updated 11 weeks ago by
Michael Love
41k • written 11 weeks ago by
cinzia.spagnoli
• 0
0
votes
14
replies
2.2k
views
Path to file in windows
bioconductor
R
windows
diffbind
updated 7.0 years ago by
Gord Brown
▴ 650 • written 7.0 years ago by
jorrenkuster
• 0
0
votes
14
replies
1.7k
views
Error while opening Mart with biomaRt package
software error
ensembl
biomart
4.4 years ago
loicborcard01
• 0
0
votes
14
replies
2.0k
views
Trouble downloading dada2
dada
dada2
14 months ago
elliottchon97
• 0
2
votes
13
replies
14k
views
Issues connecting with R 3.2.2 to source("http://bioconductor.org/biocLite.R")
spade
8.5 years ago
frostbite907
• 0
2
votes
13
replies
2.0k
views
Found gaps in scan time of file : cut scantime-vector at NA seconds. Error: BiocParallel errors element index: 1, 2, 3, 4, 5, 6 first error: argu…
xcms
adjustRtime
parameters
scantime error
biocparallel error
4.6 years ago
abrsoule
▴ 30
5
votes
13
replies
4.2k
views
Getting error
enrichplot
clusterProfiler
org.Hs.eg.db
updated 2.1 years ago by
793345316
▴ 40 • written 2.1 years ago by
beslinail
• 0
1
vote
13
replies
365
views
Trying to use enrichGO
clusterProfiler
GenomicDistributionsData
KEGG
10 days ago • updated 7 days ago
fernanda.backsouza
▴ 10
1
vote
12
replies
1.2k
views
Taking much longer time for same script after R upgrade to 4.0
R
3.9 years ago
hsiowa2
▴ 20
6
votes
12
replies
1.8k
views
Error when loading DMRcate
DMRcate
14 months ago
Bazingastats
• 0
1
vote
12
replies
3.0k
views
readVcf does not recognize tabix index
VariantAnnotation
readvcf
tabix
updated 3.1 years ago by
Vincent J. Carey, Jr.
6.7k • written 3.1 years ago by
naive
• 0
1
vote
12
replies
4.6k
views
WGCNA: correlations module-traits, and module membership-gene significance
WGCNA
co-expression analysis
gene significance
module membership
module-trait relationship
updated 23 months ago by
annamariabugaj
▴ 10 • written 4.6 years ago by
rodrigo.duarte88
▴ 30
1
vote
12
replies
3.8k
views
Problem with summarizeOverlaps function
genomicalignments
read counting
8.7 years ago
kgorczak
▴ 10
2
votes
11
replies
5.5k
views
Error: cannot allocate vector of size ...MB
limma
8.3 years ago
fahime.falahi
• 0
0
votes
11
replies
2.0k
views
Problem in subtracting ChIP Seq experiment with the input using ChIPSeqSpike
chipseq
ChIPSeqSpike
updated 3.2 years ago by
nicolas.descostes
• 0 • written 3.3 years ago by
Ainul
• 0
5
votes
11
replies
2.8k
views
Error while installing Phyloseq using biocLite
bioclite
phyloseq
install error
5.6 years ago
khp
▴ 30
2
votes
11
replies
7.1k
views
ClusterProfiler enrichGO function leads to different enrichment results in different computers, while the code and gene list keep same
clusterProfiler
2.4 years ago
liuzhy
▴ 10
0
votes
11
replies
2.1k
views
rsbml fails to compile on Linux due to ParseMessage.h undetected with libSBML 5
rsbml
compilation error
configure
7.4 years ago
zeb
• 0
1
vote
11
replies
1.5k
views
BiocParallel 1.33.12 binary has incorrect library linkage on macOS x86
BiocParallel
updated 12 months ago by
Martin Morgan
25k • written 12 months ago by
Michael Steinbaugh
▴ 90
3
votes
11
replies
3.5k
views
The low successful assignment ratio of FeatureCounts
FeatureCounts
Rsubread
Subread
2.0 years ago
Sarah_piggy
▴ 10
2
votes
11
replies
6.1k
views
biomaRT connexion problem make failed my unit tests
biomaRt
Peer's Certificate
Ensembl
updated 3.3 years ago by
Mike Smith
★ 6.5k • written 3.6 years ago by
ilysR
• 0
0
votes
11
replies
2.9k
views
Hello, I'm having trouble in installing Limma package and this is what Im getting
limma
updated 3.1 years ago by
Kevin Blighe
★ 3.9k • written 3.1 years ago by
Deepti
• 0
2
votes
11
replies
2.1k
views
RBGL installation error
rbgl
8.0 years ago
Julian Gehring
★ 1.3k
0
votes
11
replies
4.3k
views
Examples from keggList in KEGGREST don't all work
software error
keggrest
8.2 years ago
Bryan Hanson
• 0
14
votes
10
replies
3.7k
views
Error when trying to preprocessReads() : "Error: logical subscript contains NAs"
systempiper
5.4 years ago
Deleted
▴ 70
0
votes
10
replies
2.0k
views
Ability to use a particular package via Docker
Docker
flowcore
dockerfile
7.6 years ago
jordan.xanthopoulos
• 0
2
votes
10
replies
2.2k
views
DEseq normalization Small RNA-seq data using rRNA
deseq2
normalization
smallrna
ribosomal rna
7.6 years ago
mosharrofgeb
▴ 10
2
votes
10
replies
6.0k
views
Install older specific version from an R package that is on the Bioconductor Repository
Bioconductor
biocLite
R packages
oldversion
8.5 years ago
svlachavas
▴ 830
1
vote
10
replies
2.7k
views
Building mzR package under docker fails
mzR
docker
debian
centos
rocker
8.6 years ago
mjmg
• 0
0
votes
10
replies
1.9k
views
Phyloseq to metagenomeSeq
limma
metagenomeSeq
4.9 years ago
Jitendra
▴ 10
0
votes
10
replies
2.0k
views
behaviour of findOverlaps on GRangesList object
findOverlaps
grangeslist
GenomicRanges
6.9 years ago
lovro0
▴ 10
2
votes
10
replies
1.1k
views
Accounting for Batch effect reduces DEGs drastically
DESeq2
6 months ago • updated 5 months ago
rohitsatyam102
▴ 20
0
votes
9
replies
1.7k
views
Volcano plot non-numeric argument error
volcano plot
edgr
7.2 years ago
elena.capel
▴ 10
0
votes
9
replies
1.4k
views
summarizeOverlaps bplapply error in DeSeq2 pipeline
summarizeOverlaps
R
GenomicAlignments
updated 4.9 years ago by
Martin Morgan
25k • written 4.9 years ago by
cavery
• 0
3
votes
9
replies
2.9k
views
Create object "Go3AnnDbBimap" and include it in a org.Xx.eg.db package to use with goProfiles and goTools
goprofiles
AnnotationForge
Bimap
GO
9.6 years ago
artur
▴ 80
4
votes
9
replies
7.8k
views
Upper triangular matrix heatmap using pheatmap package
pheatmap
8.4 years ago
Deepak Tanwar
▴ 10
0
votes
9
replies
1.3k
views
invalid class “NormalyzerEvaluationResults” object: invalid object for slot "lowVarFeaturesCVs" in class "NormalyzerEvaluationResults": got class "NU…
NormalyzerDE
updated 2.1 years ago by
Jakob Willforss
• 0 • written 2.1 years ago by
Alejandro
• 0
1
vote
9
replies
2.5k
views
Removing batch effects from microarray data based on only a subset of samples
limma
removebatcheffect()
ComBat
microarray
6.3 years ago
jaro.slamecka
▴ 140
0
votes
9
replies
2.9k
views
Error 'names' attribute must be the same length as the vector xcms
xcms
xcms3
mzxml
5.7 years ago
goh
• 0
7
votes
9
replies
1.7k
views
codelink package is not installing
codelink
r
9.0 years ago
Agaz Hussain Wani
▴ 260
1
vote
9
replies
3.0k
views
Dotplots for differential gene expression data ?
clusterprofiler
3.8 years ago
sunnykevin97
• 0
1,000 results • Page
1 of 20
Recent ...
Replies
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Votes
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
Awards
• All
Scholar
to
Rory Stark
★ 5.2k
Popular Question
to
tangming2005
▴ 190
Popular Question
to
Ian D.
▴ 70
Popular Question
to
junhui.li11
• 0
Scholar
to
James W. MacDonald
65k
Locations
• All
Canada,
2 minutes ago
United States,
4 minutes ago
United States,
18 minutes ago
United States,
18 minutes ago
Melbourne, Australia,
20 minutes ago
Traffic: 590 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