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Annotation
•
reset
5
votes
13
replies
1.4k
views
Installing annotation package in locally
AnnotationDbi
AnnotationHub
Annotation
AnnotationForge
14 days ago • updated 12 days ago
KABILAN
• 0
0
votes
1
reply
179
views
how do I convert an Ilumn IDREF to a CPG loci
AnnotationDbi
Annotation
annotation
BiologicalQuestion
updated 4 weeks ago by
James W. MacDonald
67k • written 4 weeks ago by
Olajumoke
• 0
0
votes
0
replies
244
views
Job:
Ensembl Job Vacancies
genomes
Annotation
GenomicVariation
ensembldb
9 weeks ago
Aleena
▴ 30
1
vote
2
replies
800
views
Struggling to convert a large list of non-model genes into human orthologs, any suggestions?
annotation
4 months ago
ronin
• 0
2
votes
2
replies
515
views
Get gene symbols for a set of hg19 coordinates
annotation
hg19
5 months ago
pcantalupo
▴ 10
1
vote
6
replies
885
views
unable to access Annotationhub latest record
DNAMethylation
AnnotationHub
EPICv2manifest
annotation
updated 6 months ago by
Tim Peters
▴ 200 • written 7 months ago by
s.malik
• 0
2
votes
2
replies
687
views
Only positive enrichment score in GSEA
clusterProfiler
annotation
gseGO
gsea
OrgDb
written 7 months ago by
enee
▴ 10
0
votes
0
replies
440
views
Best method for annotating distal peaks
ChIPSeq
annotation
ChIPpeakAnno
9 months ago
nilanjanamani88
• 0
0
votes
5
replies
2.3k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation
affy
oligo
ffpe
Annotation
affy
oligo
ffpe
written 10.8 years ago by
Guest User
★ 13k
5
votes
11
replies
4.6k
views
How to annotate gene names for genomic coordinates?
annotation
written 9.4 years ago by
seeker
• 0
0
votes
1
reply
735
views
Create design matrix for differential methylation analysis
Annotation
annotate
DifferentialMethylation
minfiDataEPIC
updated 13 months ago by
Basti
▴ 780 • written 13 months ago by
titangerd
• 0
1
vote
0
replies
882
views
News:
Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0
release
Annotation
13 months ago
kayla.interdonato
▴ 160
0
votes
1
reply
5.5k
views
Bioconductor version cannot be validated
Bioconductor
Annotation
Ann
updated 13 months ago by
James W. MacDonald
67k • written 13 months ago by
Aytaç
• 0
3
votes
4
replies
938
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData
GSE97562
pd.hugene.1.0.st.v1
Annotation
updated 15 months ago by
James W. MacDonald
67k • written 15 months ago by
rodj5201
• 0
2
votes
4
replies
1.3k
views
Use with_go along with other filters in getBM function
Annotation
biomaRt
17 months ago
RuBBiT0
▴ 10
0
votes
2
replies
1.1k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest
ChAMP
annotation
updated 18 months ago by
James W. MacDonald
67k • written 18 months ago by
Matilda
• 0
0
votes
4
replies
1.5k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
18 months ago • updated 17 months ago
Michael Steinbaugh
▴ 90
0
votes
0
replies
758
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb
AnnotationDbi
Annotation
19 months ago
ahiser
• 0
0
votes
3
replies
955
views
Annotated dendogram (tree) from tbl_graph
dendogram
ggtreeExtra
ggtree
annotation
Annotation
19 months ago
christian.dina
• 0
0
votes
0
replies
936
views
News:
Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release
db0
Annotation
19 months ago
kayla.interdonato
▴ 160
2
votes
1
reply
700
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData
Annotation
GEOdata
updated 21 months ago by
James W. MacDonald
67k • written 21 months ago by
Michele Claire
• 0
0
votes
1
reply
1.1k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi
annotation
ChIPseeker
updated 21 months ago by
James W. MacDonald
67k • written 21 months ago by
L
▴ 50
3
votes
3
replies
1.5k
views
Is ther an annotation package for sheep (Ovis aries)
sheep
database_package
Annotation
updated 21 months ago by
Guido Hooiveld
★ 4.1k • written 21 months ago by
priscilaramosibeas
▴ 10
0
votes
1
reply
698
views
Bioconductor tool for curating annotations?
Annotation
updated 21 months ago by
Lluís Revilla Sancho
▴ 760 • written 21 months ago by
Charles Plessy
▴ 180
3
votes
2
replies
2.7k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2
PackageTypeData
package
Annotation
21 months ago
m-bihie
▴ 10
1
vote
9
replies
1.7k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 21 months ago by
James W. MacDonald
67k • written 21 months ago by
stacy.genovese
• 0
0
votes
3
replies
1.1k
views
A look inside annotation packages
Annotation
23 months ago • updated 22 months ago
Ed Siefker
▴ 230
3
votes
2
replies
7.2k
views
How to convert Illumina HT_12_v4 annotation
convert
R
annotation
microarray
illumina human ht-12 v4
updated 23 months ago by
snijesh
▴ 200 • written 6.9 years ago by
p_donchev84
• 0
2
votes
3
replies
2.2k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal
ensembldb
rtracklayer
Annotation
updated 21 months ago by
rbj
• 0 • written 23 months ago by
Jake
▴ 10
0
votes
5
replies
2.6k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R
ensembldb
Annotation
updated 2.1 years ago by
Guido Hooiveld
★ 4.1k • written 2.1 years ago by
Mohamed
▴ 30
0
votes
0
replies
880
views
News:
Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release
db0
annotation
2.1 years ago
kayla.interdonato
▴ 160
0
votes
1
reply
736
views
Annotation data packages for plant parasitic nematodes
AnnotationData
Annotation
updated 2.1 years ago by
James W. MacDonald
67k • written 2.1 years ago by
Hassanaly
• 0
1
vote
3
replies
2.3k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation
GeneOntology
topGO
GO
updated 2.4 years ago by
James W. MacDonald
67k • written 2.4 years ago by
Raito92
▴ 60
0
votes
1
reply
1.1k
views
News:
Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation
release
db0
2.6 years ago • updated 2.5 years ago
kayla.interdonato
▴ 160
0
votes
0
replies
758
views
low mapping between annotated genome and transcriptome
transcriptome
Annotation
mapping
2.6 years ago
Ava
• 0
0
votes
1
reply
1.0k
views
peak annotation
ChIPpeakAnno
Annotation
updated 2.5 years ago by
Kai Hu
▴ 70 • written 2.6 years ago by
Bogdan
▴ 670
0
votes
0
replies
869
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware
GOSemSim
annotation
2.8 years ago
Amandeep
• 0
0
votes
1
reply
1.4k
views
SNP annotation
SNPRelate
SNP
GWASTools
Annotation
GWASdata
updated 2.8 years ago by
Stephanie M. Gogarten
▴ 870 • written 2.9 years ago by
Adrián
• 0
0
votes
1
reply
1.6k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA
package
annotation
updated 2.8 years ago by
shepherl
4.1k • written 2.8 years ago by
mathavanbioinfo
▴ 20
0
votes
0
replies
849
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation
annotatr
2.9 years ago
Ahdee
▴ 50
0
votes
2
replies
2.5k
views
getBM error in the biomaRt R package
Annotation
updated 2.2 years ago by
qiz218591
• 0 • written 2.9 years ago by
arungowda9738
• 0
0
votes
1
reply
1.2k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation
biomaRt
ensembldb
written 3.0 years ago by
Lillian
• 0
0
votes
0
replies
1.0k
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process
annotationTools
AnnotationFilter
Annotation
biomaRt
3.0 years ago
Shane
• 0
0
votes
1
reply
1.1k
views
Issue with annotation package mouse4302.db
mouse4302.db
annotation
updated 3.0 years ago by
James W. MacDonald
67k • written 3.0 years ago by
surajit
• 0
1
vote
1
reply
1.7k
views
Is there any R package for filtering out SNP markers?
Tutorial
annotation
updated 3.1 years ago by
Kevin Blighe
★ 4.0k • written 5.3 years ago by
prodhan82
▴ 20
0
votes
1
reply
842
views
anotacion para Anopheles Albimanus
anopheles_albimanus
Annotation
updated 3.1 years ago by
shepherl
4.1k • written 3.1 years ago by
Fernanda
• 0
3
votes
1
reply
2.6k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData
AnnotationDbi
annotation
updated 3.1 years ago by
James W. MacDonald
67k • written 3.1 years ago by
kstachelek
• 0
1
vote
1
reply
2.6k
views
ComplexHeatmap: Not able to change the annotations size of the heatmap
ComplexHeatmap
Anno
Annotation
updated 3.2 years ago by
Zuguang Gu
▴ 290 • written 3.2 years ago by
Ashish Jain
▴ 10
1
vote
2
replies
3.1k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation
AnnotationDbi
annotate
updated 3.3 years ago by
James W. MacDonald
67k • written 3.3 years ago by
cosomol999
• 0
5
votes
10
replies
2.5k
views
How to do annotation with Limma
annotation
limma
updated 3.4 years ago by
Guido Hooiveld
★ 4.1k • written 3.4 years ago by
1gagoogag1
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: Question about using LRT test for time course experiments with DESeq2
by
James W. MacDonald
67k
You don't want to add a logFC on top like that, as it invalidates the p-value. Maybe I wasn't clear before. The LRT gives you all the gene…
Comment: Question about using LRT test for time course experiments with DESeq2
by
Denise
• 0
Hi James, Thank you very much for your very detailed explanation! I guess my question is simpler than that, I just want to union, across…
Answer: featureCounts segmentation fault with large chromosomes
by
vkkodali
▴ 10
Thanks to @yangliao this issue is fixed in subread v2.0.8
Comment: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
by
ATpoint
★ 4.5k
For the general audience, reticulate / python (which basilisk depends on / wraps) requires explicit declaration of integers, so one needs i…
Answer: Average expression of genes across replicates
by
ATpoint
★ 4.5k
Not sure what you're asking. The average expression across all samples is what the `baseMean` column of `results()` returns. This is simply…
Votes
Answer: featureCounts segmentation fault with large chromosomes
Answer: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db?
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