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
Showing :
annotation
•
reset
2
votes
1
reply
1.5k
views
Corrupt AnnotationHub database - previously posted fix not working
annotation
error
8.6 years ago
tullyij1
• 0
3
votes
8
replies
2.8k
views
How does the org.Dm.eg.db package deal with NOT annotation qualifiers when annotating genes to GO?
org.dm.eg.db
gene ontology
go enrichment
annotation
NOT
updated 8.6 years ago by
Valerie Obenchain
★ 6.8k • written 8.7 years ago by
triZZla
• 0
0
votes
3
replies
2.7k
views
Unknown annotation in the RGChannelSetExtended object
minfi
idat
annotation
EPIC
updated 8.7 years ago by
xue.zhang
• 0 • written 8.7 years ago by
Frocha
▴ 20
1
vote
4
replies
5.4k
views
Transcript to gene in clariom d human affymetrix data
annotation
clariomdhumantranscriptcluster.db
oligo
8.7 years ago
yahia.adnani
• 0
0
votes
0
replies
1.6k
views
Pathway analysis for diffrential express gene
pathways
gage
annotation
gostats
8.7 years ago
avinash gupta
▴ 130
6
votes
6
replies
4.2k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound)
Gostats
go term
annotation
drosophila melanogaster
error
updated 8.7 years ago by
tlaguna
▴ 10 • written 9.4 years ago by
nooshin
▴ 300
1
vote
3
replies
3.2k
views
how to renameSeqlevels-GenomicAlignments
annotation
GAlignments
bamfileobject
renameseqlevels
8.7 years ago
teresati
▴ 10
0
votes
0
replies
1.7k
views
Generate START and STOP ranges from a gff file
bioconductor
annotation
gff
8.7 years ago
hwu12
▴ 10
0
votes
2
replies
1.6k
views
HGU133PLUS.db : NA's when using getSYMBOL while uptodate NetAffx database gives gene names
Annotation
hgu133plus2
updated 8.7 years ago by
James W. MacDonald
68k • written 8.7 years ago by
benoit.tessoulin
• 0
3
votes
6
replies
3.3k
views
RSQLite::dbGetPreparedQuery() is deprecated in AnnotationForge
annotation
microarray
annotate
annotationforge
8.7 years ago
MOD
• 0
1
vote
1
reply
1.5k
views
select function not working with annotation package; bug?
annotation
annotationdata
illuminaMousev1p1.db
updated 8.8 years ago by
James W. MacDonald
68k • written 8.8 years ago by
Guido Hooiveld
★ 4.1k
0
votes
1
reply
1.4k
views
annotation of agillent array G3 Human Gene Expression v3 8x50
microarray
annotation
agilent
updated 8.8 years ago by
James W. MacDonald
68k • written 8.8 years ago by
jarod_v6@libero.it
▴ 40
1
vote
2
replies
1.6k
views
hta20sttranscriptcluster.db is not available for R version 3.3.2
annotation
software error
updated 8.8 years ago by
James W. MacDonald
68k • written 8.8 years ago by
ricardo.martinez-zamudio
• 0
4
votes
6
replies
2.5k
views
Gene set Testing with Limma for Agilent IDs probes?
limma
agilent microarrays
gene set testing
annotation
8.8 years ago
Bouzid.a
▴ 20
3
votes
4
replies
5.7k
views
LIMMA and Agilent single color
Annotation
probe
limma
agilent
14.9 years ago • updated 8.8 years ago
Gordon Smyth
53k
3
votes
6
replies
10k
views
convert data frame of Entrez IDs to Gene Symbols
annotation
updated 8.8 years ago by
James W. MacDonald
68k • written 8.8 years ago by
Guido Hooiveld
★ 4.1k
2
votes
3
replies
2.0k
views
ChIPpeakAnno-annotation of peaklist with gene names, creating heat maps
chippeakanno
overlappingpeaks
annotation
updated 8.9 years ago by
Ou, Jianhong
★ 1.3k • written 8.9 years ago by
jmKeith
• 0
5
votes
2
replies
1.5k
views
Codelink annotation error in Ubuntu 16.04
codelink
annotation
ubuntu
updated 8.9 years ago by
Martin Morgan
25k • written 8.9 years ago by
Agaz Hussain Wani
▴ 260
3
votes
2
replies
2.0k
views
How to fix ChIPPeakAnno error in adding gene names to annotated peaks?
software error
annotation
8.9 years ago
jmKeith
• 0
0
votes
1
reply
898
views
How to get the table which used to plot heatmap in DiffBind
annotation
updated 8.9 years ago by
Rory Stark
★ 5.2k • written 8.9 years ago by
maofengbiao
• 0
1
vote
7
replies
2.7k
views
UniProt.ws report 1:many mappings in a single row
uniprot.ws
UniProt
annotation
9.0 years ago
l.nilse
• 0
2
votes
2
replies
12k
views
Error in .testForValidKeys "org.Rn.eg.db"
annotation
updated 9.0 years ago by
Guido Hooiveld
★ 4.1k • written 9.0 years ago by
z.he
• 0
5
votes
1
reply
3.8k
views
finding overlapping regions within 2 different bed files with different features
R
annotation
updated 9.0 years ago by
Martin Morgan
25k • written 9.0 years ago by
chrisclarkson100
▴ 50
1
vote
1
reply
1.4k
views
hugene10sttranscriptcluster.db missing annotation compare to hgu133plus2.db
annotation
affy
updated 9.0 years ago by
James W. MacDonald
68k • written 9.0 years ago by
Stane
▴ 40
0
votes
1
reply
1.1k
views
how to annotate TCGA snp6 data in gene centric approach
microarray
dbGetQuery
pd.genomewidesnp.6
annotation
9.0 years ago
seeker
• 0
0
votes
0
replies
1.4k
views
how to annotate TCGA snp6 data with genomic coordinates
microarray
tcga
annotation
snp6.0
9.0 years ago
seeker
• 0
0
votes
6
replies
2.1k
views
Is reactome.db still updated?
reactome.db
annotation
pathways
9.1 years ago
Guido Hooiveld
★ 4.1k
3
votes
3
replies
3.3k
views
Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower
annotation
txdb.hsapiens.ucsc.hg38.knowngene
bug
9.1 years ago
shilin.zhao
▴ 40
1
vote
4
replies
1.9k
views
getBM. Get genome location for probes that do not map to genes
biomart
annotation
9.1 years ago
Aedin Culhane
▴ 510
3
votes
5
replies
3.0k
views
Fail to install "AnnotationHub"
software error
annotation
genefilter
pd.hta.2.0
updated 9.1 years ago by
Martin Morgan
25k • written 9.1 years ago by
Lian Liu
▴ 20
1
vote
6
replies
2.0k
views
BiomaRt: Query ERROR (database error)
annotation
biomart
bioconductor
updated 9.1 years ago by
Dan Staines
▴ 70 • written 9.1 years ago by
lucer105
• 0
1
vote
6
replies
2.9k
views
biomaRt not working anymore
biomart
annotation
9.1 years ago
ldetorrente
▴ 10
1
vote
5
replies
3.1k
views
Affymetrix Rat Transcriptome Array (Clariom D) annotation
annotation
microarray
pdinfobuilder
oligo
9.2 years ago
Ed D
• 0
0
votes
3
replies
1.3k
views
makeTranscriptDbFromUCSC 'refLink' table error
annotation
updated 9.2 years ago by
caldavis
• 0 • written 9.2 years ago by
cmarcone
• 0
9
votes
2
replies
3.5k
views
How to deal with Affymetrix GeneChip probeids that map to multiple genes
hta20sttranscriptcluster.db
probe mapping
annotation
pd.hta.2.0
annotationdbi
updated 9.2 years ago by
James W. MacDonald
68k • written 9.2 years ago by
relathman
▴ 20
0
votes
2
replies
1.9k
views
Need help annotating Affymetrix 1.1ST microarrays
oligo
annotation
affymetrix microarrays
zebrafish
updated 9.2 years ago by
Guido Hooiveld
★ 4.1k • written 9.2 years ago by
mat149
▴ 80
1
vote
2
replies
1.6k
views
annotation: how to use "character" for function 'select()'
annotation
organismdb
updated 9.2 years ago by
Martin Morgan
25k • written 9.2 years ago by
Guido Hooiveld
★ 4.1k
0
votes
1
reply
2.8k
views
fail to install org.Hs.eg.db and hgu133plus2.db
annotation
bioconductor
installation
package installation
9.2 years ago
xiaoyutian212
• 0
0
votes
0
replies
1.5k
views
homologue gene conversion worm to human
biomaRt
homologue
annotation
genetics
9.2 years ago
Nemo
▴ 80
0
votes
1
reply
1.7k
views
Annotation for Mouse Illumina Expression Chip V6.1.1
bead chip
Annotation
Mouse
Lumi
probeID2nuID
updated 9.3 years ago by
Andy Lynch
▴ 120 • written 9.3 years ago by
smt8n
• 0
0
votes
3
replies
3.1k
views
Draft support for HTA 2.0 with oligo
Annotation
pdInfoBuilder
Annotation
pdInfoBuilder
updated 9.3 years ago by
aswathym
▴ 10 • written 11.7 years ago by
Johann Pellet
▴ 10
5
votes
22
replies
6.8k
views
sqliteSendQuery error in AnnotationForge bioconductor package
bioconductor
annotationforge
annotationdbi
annotation
r
updated 9.3 years ago by
Axel Klenk
★ 1.1k • written 10.7 years ago by
Stephen H
• 0
0
votes
0
replies
1.0k
views
AnalysisPageServer embedded hyperlinks
R
annotation
bioconductor
r packages
9.4 years ago
mcaulfield
• 0
0
votes
8
replies
3.0k
views
How to use the QUIDE-seq R/python package to remove non-genomic DNA sequences?
annotation
software
software error
updated 9.4 years ago by
Julie Zhu
★ 4.3k • written 9.4 years ago by
mousheng xu
▴ 10
5
votes
2
replies
18k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap
bioconductor
annotation
heatmap
legend
9.5 years ago • updated 9.4 years ago
annkatrin.goepfert
▴ 10
0
votes
4
replies
1.7k
views
GO annotation and gene set testing for plant dataset
go
edger
annotation
topgo
bioconductor
9.5 years ago • updated 9.4 years ago
myprogramming2016
• 0
0
votes
0
replies
1.5k
views
AnnotationData Packages version and pipeline management
docker
annotation
pipeline
9.5 years ago
Elena Grassi
▴ 10
0
votes
1
reply
1.9k
views
How to identify the microarray annotation library automatically from GEO study ID?
limma
microarray
annotation
bioconductor
annotate
updated 9.5 years ago by
James W. MacDonald
68k • written 9.5 years ago by
lijin.abc
• 0
1
vote
1
reply
1.7k
views
Genome versions of the VcfFiles from AnnotationHub
annotation
software error
vcf
annotationhub
updated 9.6 years ago by
Valerie Obenchain
★ 6.8k • written 9.6 years ago by
sskimb
▴ 10
9
votes
4
replies
4.2k
views
PDCD1 missing from TxDb.Hsapiens.UCSC.hg38.knownGene?
txdb
txdb.hsapiens.ucsc.hg19.knowngene
txdb.hsapiens.ucsc.hg38.knowngene
org.hs.eg.db
annotation
9.6 years ago
enricoferrero
▴ 680
1,978 results • Page
8 of 40
Recent ...
Replies
Comment: Ensembl 115 has been released!
by
eja.gsssssswwse.r.m
• 0
Keeping up with Ensembls latest release ensures access to cutting-edge genomic information. For those balancing research and leisure, a mob…
Answer: After running samtools, the featureCounts command crashed.
by
Kevin Blighe
★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot
by
Kevin Blighe
★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type
by
Kevin Blighe
★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction
by
Kevin Blighe
★ 4.0k
Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
Awards
• All
Scholar
to
shepherl
4.2k
Scholar
to
James W. MacDonald
68k
Popular Question
to
Daniel Cameron
▴ 40
Popular Question
to
Peter Hickey
▴ 760
Popular Question
to
edward.esiribloom
• 0
Locations
• All
United States,
13 minutes ago
Pakistan,
41 minutes ago
Pittsburgh, United States,
2 hours ago
Barcelona, Spain,
3 hours ago
Chile,
4 hours ago
Traffic: 739 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