Showing : AnnotationHub • reset
2
votes
2
replies
204
views
Failure to download resources (MeSHDb) from AnnotationHub
MeSHDb AnnotationHub
9 weeks ago Steve Lianoglou ★ 13k
3
votes
3
replies
683
views
AnnotationHub/ExperimentHub resources backup
AnnotationHub HubPub ExperimentHub
updated 8 months ago by 68k • written 8 months ago by ▴ 50
0
votes
1
reply
744
views
Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
updated 8 months ago by ▴ 80 • written 14 months ago by • 0
1
vote
3
replies
1.3k
views
Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malformed error
signac AnnotationHub
written 10 months ago by ▴ 110
5
votes
13
replies
2.5k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
14 months ago KABILAN • 0
0
votes
3
replies
1.6k
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
17 months ago Anna • 0
1
vote
5
replies
2.2k
views
EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
18 months ago Lluís Revilla Sancho ▴ 760
0
votes
5
replies
2.2k
views
Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 18 months ago by 4.2k • written 18 months ago by • 0
0
votes
0
replies
695
views
News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
19 months ago • updated 18 months ago shepherl 4.2k
1
vote
1
reply
743
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 19 months ago by 68k • written 19 months ago by • 0
6
votes
12
replies
8.8k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
2.2 years ago • updated 20 months ago shepherl 4.2k
10
votes
44
replies
11k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 1 day ago by • 0 • written 7.1 years ago by ★ 4.1k
1
vote
6
replies
1.8k
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 21 months ago by ▴ 230 • written 21 months ago by • 0
2
votes
1
reply
1.2k
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 22 months ago by 43k • written 22 months ago by • 0
0
votes
1
reply
702
views
Annotatr Duplicate Entries
annotatr AnnotationHub
written 23 months ago by • 0
2
votes
28
replies
7.3k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 2.1 years ago by 68k • written 3.1 years ago by ▴ 10
3
votes
4
replies
3.0k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by • 0
1
vote
2
replies
1.5k
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
2.2 years ago Thon • 0
0
votes
1
reply
1.2k
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
3.0 years ago • updated 2.9 years ago Thomas • 0
2
votes
2
replies
1.3k
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
3.4 years ago • updated 3.3 years ago Lenny186 • 0
0
votes
3
replies
2.7k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
3.4 years ago sandmann.t ▴ 70
9
votes
21
replies
17k
views
ah <- AnnotationHub() Error in UseMethod("filter_"): no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tb…
AnnotationHub dplyr
updated 3.4 years ago by ▴ 10 • written 5.2 years ago by ▴ 40
0
votes
2
replies
2.6k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 3.8 years ago by 4.2k • written 3.8 years ago by ▴ 70
0
votes
4
replies
2.0k
views
AnnotationHub
AnnotationHub
3.8 years ago junliqilinpan • 0
4
votes
6
replies
4.2k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 3.8 years ago by 53k • written 3.9 years ago by • 0
9
votes
14
replies
10k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 18 months ago by 4.2k • written 4.0 years ago by ▴ 40
0
votes
2
replies
1.8k
views
AnnotationHub problem
AnnotationHub
4.0 years ago Jianxuan • 0
4
votes
8
replies
3.2k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
4.1 years ago • updated 3.7 years ago nattzy94 ▴ 20
1
vote
3
replies
2.0k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 4.2 years ago by ★ 6.6k • written 4.2 years ago by • 0
2
votes
10
replies
3.7k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 4.2 years ago by ★ 4.1k • written 4.2 years ago by • 0
0
votes
0
replies
925
views
LRBaseDbi error
LRBaseDbi AnnotationHub
4.3 years ago Francois Marchildon ▴ 20
1
vote
2
replies
2.7k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 4.7 years ago by ★ 4.1k • written 4.7 years ago by • 0
0
votes
1
reply
1.7k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
4.8 years ago shepherl 4.2k
0
votes
3
replies
7.1k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 3.4 years ago by • 0 • written 4.8 years ago by ▴ 20
3
votes
11
replies
7.9k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 23 months ago by ★ 4.1k • written 4.9 years ago by • 0
11
votes
13
replies
6.8k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
5.1 years ago • updated 4.9 years ago rohitsatyam102 ▴ 20
3
votes
2
replies
2.8k
views
Issue with AnnotationHub
AnnotationHub
5.1 years ago rahnaman ▴ 10
1
vote
2
replies
1.8k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
5.2 years ago Ezgi ▴ 60
1
vote
3
replies
1.6k
views
AnnotationHub: failed to load resource name
AnnotationHub
5.4 years ago ben.ponv • 0
4
votes
17
replies
3.9k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by ▴ 10
4
votes
2
replies
2.4k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
5.4 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
9.7k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 5.4 years ago by 4.2k • written 5.4 years ago by ▴ 680
0
votes
2
replies
2.0k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 5.5 years ago by 68k • written 5.5 years ago by ★ 2.0k
0
votes
3
replies
1.7k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 5.6 years ago by 68k • written 5.6 years ago by ▴ 670
3
votes
6
replies
3.5k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 3.5 years ago by 4.2k • written 5.6 years ago by ★ 2.0k
2
votes
8
replies
3.0k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
1
vote
5
replies
2.5k
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 5.8 years ago by 4.2k • written 5.8 years ago by • 0
0
votes
2
replies
1.5k
views
hg38 tracks for AnnotationHub
annotationhub
5.9 years ago Michael Love 43k
0
votes
1
reply
1.4k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 5.9 years ago by 4.2k • written 5.9 years ago by • 0
0
votes
8
replies
4.0k
views
I can't use AnnotationHub()
AnnotationHub
6.0 years ago 755606975 • 0
131 results • Page 1 of 3
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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…
Votes
A: What is logFC and "B" in methylation analysis ??
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
Awards • All
Popular Question to Gordon Smyth 53k
Popular Question to Aleena_Ensembl ▴ 30
Popular Question to Hervé Pagès 16k
Teacher to Michael Love 43k
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