Showing : AnnotationHub • reset
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Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
1 day ago daccar98 • 0
5
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13
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1.4k
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Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
15 days ago • updated 13 days ago KABILAN • 0
0
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3
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535
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makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
3 months ago Anna • 0
1
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5
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700
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EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
4 months ago Lluís Revilla Sancho ▴ 760
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5
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932
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Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 4 months ago by 4.1k • written 4 months ago by • 0
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0
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245
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News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
4 months ago shepherl 4.1k
1
vote
1
reply
343
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 5 months ago by 67k • written 5 months ago by • 0
6
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12
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6.7k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
12 months ago • updated 6 months ago shepherl 4.1k
10
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41
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7.2k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 5 months ago by • 0 • written 6.0 years ago by ★ 4.1k
1
vote
6
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885
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unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 6 months ago by ▴ 200 • written 7 months ago by • 0
2
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1
reply
659
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clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 8 months ago by 42k • written 8 months ago by • 0
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0
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396
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Annotatr Duplicate Entries
annotatr AnnotationHub
9 months ago hayleyw • 0
2
votes
28
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5.3k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 11 months ago by 67k • written 23 months ago by ▴ 10
3
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4
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1.7k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
1
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2
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907
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AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
12 months ago Thon • 0
0
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1
reply
876
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
21 months ago Thomas • 0
2
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2
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975
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
2.2 years ago Lenny186 • 0
0
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3
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1.7k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.3 years ago • updated 2.2 years ago sandmann.t ▴ 70
9
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21
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15k
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 2.3 years ago by ▴ 10 • written 4.0 years ago by ▴ 40
0
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2
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2.2k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 2.6 years ago by 4.1k • written 2.6 years ago by ▴ 70
0
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4
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1.5k
views
AnnotationHub
AnnotationHub
2.6 years ago junliqilinpan • 0
4
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6
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2.9k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 2.7 years ago by 51k • written 2.7 years ago by • 0
9
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14
replies
7.4k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 3 months ago by 4.1k • written 2.8 years ago by ▴ 40
0
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2
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1.3k
views
AnnotationHub problem
AnnotationHub
2.8 years ago Jianxuan • 0
4
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8
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2.3k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
2.9 years ago • updated 2.5 years ago nattzy94 ▴ 20
1
vote
3
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1.4k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 3.0 years ago by ★ 6.6k • written 3.1 years ago by • 0
2
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10
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2.8k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 3.0 years ago by ★ 4.1k • written 3.0 years ago by • 0
0
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0
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718
views
LRBaseDbi error
LRBaseDbi AnnotationHub
3.2 years ago Francois Marchildon ▴ 20
1
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2
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1.7k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.5 years ago by ★ 4.1k • written 3.5 years ago by • 0
0
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1
reply
1.3k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
3.6 years ago shepherl 4.1k
0
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3
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5.0k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 2.2 years ago by • 0 • written 3.6 years ago by ▴ 20
3
votes
11
replies
5.9k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 9 months ago by ★ 4.1k • written 3.8 years ago by • 0
11
votes
13
replies
5.0k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
3.9 years ago • updated 3.8 years ago rohitsatyam102 ▴ 20
3
votes
2
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2.3k
views
Issue with AnnotationHub
AnnotationHub
3.9 years ago rahnaman ▴ 10
1
vote
2
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1.4k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
4.0 years ago Ezgi ▴ 60
1
vote
3
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1.3k
views
AnnotationHub: failed to load resource name
AnnotationHub
4.2 years ago ben.ponv • 0
4
votes
17
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2.9k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 4.2 years ago by ★ 4.0k • written 4.2 years ago by ▴ 10
4
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2
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1.9k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
4.2 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
7.7k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 4.3 years ago by 4.1k • written 4.3 years ago by ▴ 660
0
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2
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1.6k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.3 years ago by 67k • written 4.3 years ago by ★ 2.0k
0
votes
3
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1.3k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 4.4 years ago by 67k • written 4.4 years ago by ▴ 670
3
votes
6
replies
2.7k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.3 years ago by 4.1k • written 4.5 years ago by ★ 2.0k
2
votes
8
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2.0k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 4.5 years ago by 67k • written 4.5 years ago by • 0
1
vote
5
replies
1.9k
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 4.6 years ago by 4.1k • written 4.6 years ago by • 0
0
votes
2
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1.1k
views
hg38 tracks for AnnotationHub
annotationhub
4.7 years ago Michael Love 42k
0
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1
reply
1.1k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.7 years ago by 4.1k • written 4.7 years ago by • 0
0
votes
8
replies
3.2k
views
I can't use AnnotationHub()
AnnotationHub
4.8 years ago 755606975 • 0
1
vote
3
replies
2.6k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
4.9 years ago dmgatti ▴ 10
3
votes
0
replies
1.3k
views
News: EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation ensembldb EnsDb AnnotationHub News
4.9 years ago Johannes Rainer ★ 2.1k
2
votes
2
replies
1.4k
views
how to choose annotation file in AnnotationHub web server
annotation AnnotationHub
5.0 years ago 15958021290 ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Ai • 0
Hi Gordon, Thank you so much for answering my question and confirming that this is expected! I will go ahead note this down. Sincerely, …
Answer: Annotation for EPICv2 by icecreamlover • 0
Hello, I am also working on analyzing my data from EPICv2 using ChAMP. I used this resource as a guide: https://github.com/YuanTian1991/ChA…
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
And it doesn't matter if you're doing gene set analyses after, if the statistics are questionable to begin with.
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
If you're saying that (as an example) you have treated and control in both assay types, and you want to combine and make comparisons betwee…
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k
I have contacted NCBI, and meanwhile got an an answer. See below. It turns out that the official, HGNC-approved symbols are present in the…
Votes
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
A: How does edgeR cpm function calculate log(CPM) values?
Answer: DecideTest vs topTAGs in edgeR
Comment: DESeq Input from Salmon + tximport/tximeta
Comment: DESeq Input from Salmon + tximport/tximeta
Awards • All
Popular Question to Denise • 0
Popular Question to Assa Yeroslaviz ★ 1.5k
Popular Question to Gordon Smyth 51k
Popular Question to john • 0
Popular Question to James W. MacDonald 67k
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