Showing : Annotationhub • reset
0
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123
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Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
5 weeks ago daccar98 • 0
5
votes
13
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1.6k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
7 weeks ago KABILAN • 0
0
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2
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1.2k
views
AnnotationHub not working
annotation AnnotationHub
written 7.4 years ago by • 0
0
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3
replies
674
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
4 months ago Anna • 0
9
votes
14
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7.7k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 4 months ago by 4.1k • written 2.9 years ago by ▴ 40
1
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5
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893
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EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
5 months ago Lluís Revilla Sancho ▴ 760
0
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5
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1.1k
views
Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 5 months ago by 4.1k • written 5 months ago by • 0
0
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0
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289
views
News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
5 months ago shepherl 4.1k
10
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41
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7.3k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 6 months ago by • 0 • written 6.1 years ago by ★ 4.1k
1
vote
1
reply
373
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 6 months ago by 67k • written 6 months ago by • 0
6
votes
12
replies
7.0k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
13 months ago • updated 7 months ago shepherl 4.1k
1
vote
6
replies
960
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 8 months ago by ▴ 200 • written 8 months ago by • 0
2
votes
1
reply
716
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 9 months ago by 43k • written 9 months ago by • 0
3
votes
11
replies
6.1k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 10 months ago by ★ 4.1k • written 3.9 years ago by • 0
0
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0
replies
425
views
Annotatr Duplicate Entries
annotatr AnnotationHub
10 months ago hayleyw • 0
2
votes
28
replies
5.5k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 12 months ago by 67k • written 2.0 years ago by ▴ 10
3
votes
4
replies
1.9k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 13 months ago by ★ 4.1k • written 13 months ago by • 0
1
vote
2
replies
974
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
14 months ago Thon • 0
0
votes
1
reply
901
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
23 months ago • updated 22 months ago Thomas • 0
2
votes
2
replies
996
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
2.3 years ago Lenny186 • 0
0
votes
14
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5.4k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub AnnotationDbi AnnotationForge pathview
7.9 years ago • updated 2.3 years ago Jenny Drnevich ★ 2.0k
0
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3
replies
5.2k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 2.3 years ago by • 0 • written 3.7 years ago by ▴ 20
0
votes
3
replies
1.8k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.4 years ago • updated 2.3 years ago sandmann.t ▴ 70
9
votes
21
replies
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 2.4 years ago by ▴ 10 • written 4.1 years ago by ▴ 40
3
votes
6
replies
2.8k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.4 years ago by 4.1k • written 4.6 years ago by ★ 2.0k
4
votes
8
replies
2.3k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
3.0 years ago • updated 2.6 years ago nattzy94 ▴ 20
0
votes
4
replies
1.5k
views
AnnotationHub
AnnotationHub
2.7 years ago junliqilinpan • 0
0
votes
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 2.7 years ago by 4.1k • written 2.7 years ago by ▴ 70
4
votes
6
replies
3.0k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 2.8 years ago by 52k • written 2.8 years ago by • 0
0
votes
2
replies
1.3k
views
AnnotationHub problem
AnnotationHub
2.9 years ago Jianxuan • 0
1
vote
3
replies
1.5k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 3.1 years ago by ★ 6.6k • written 3.2 years ago by • 0
2
votes
10
replies
2.9k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 3.1 years ago by ★ 4.1k • written 3.2 years ago by • 0
0
votes
0
replies
732
views
LRBaseDbi error
LRBaseDbi AnnotationHub
3.3 years ago Francois Marchildon ▴ 20
1
vote
2
replies
1.8k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.6 years ago by ★ 4.1k • written 3.6 years ago by • 0
0
votes
1
reply
1.3k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
3.7 years ago shepherl 4.1k
11
votes
13
replies
5.1k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
4.0 years ago • updated 3.9 years ago rohitsatyam102 ▴ 20
2
votes
3
replies
1.5k
views
Why No Uniprot information for some other organisms in AnnotationHub?
hub annotationhub
updated 3.9 years ago by 4.1k • written 8.2 years ago by • 0
3
votes
2
replies
2.4k
views
Issue with AnnotationHub
AnnotationHub
4.0 years ago rahnaman ▴ 10
1
vote
2
replies
1.4k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
4.1 years ago Ezgi ▴ 60
1
vote
3
replies
1.3k
views
AnnotationHub: failed to load resource name
AnnotationHub
4.3 years ago ben.ponv • 0
4
votes
17
replies
3.0k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 4.3 years ago by ★ 4.0k • written 4.3 years ago by ▴ 10
4
votes
2
replies
2.0k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
4.3 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
8.0k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 4.4 years ago by 4.1k • written 4.4 years ago by ▴ 660
0
votes
2
replies
1.6k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.4 years ago by 67k • written 4.4 years ago by ★ 2.0k
0
votes
3
replies
1.3k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 4.5 years ago by 67k • written 4.5 years ago by ▴ 670
2
votes
8
replies
2.1k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 4.6 years ago by 67k • written 4.6 years ago by • 0
1
vote
5
replies
2.0k
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 4.7 years ago by 4.1k • written 4.7 years ago by • 0
0
votes
2
replies
1.2k
views
hg38 tracks for AnnotationHub
annotationhub
4.8 years ago Michael Love 43k
0
votes
1
reply
1.1k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.8 years ago by 4.1k • written 4.8 years ago by • 0
0
votes
8
replies
3.3k
views
I can't use AnnotationHub()
AnnotationHub
4.9 years ago 755606975 • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: Margins for gene_set_enrichment_plot by Leonardo Collado Torres ★ 1.1k
Hi, In version 1.19.4 of `spatialLIBD` @lahuuki re-implemented the `gene_set_enrichment_plot()` function using `ComplexHeatmap::Heatmap(…
Comment: miRTarRnaseq library by mercedeh.movassagh ▴ 20
Maria please read the mirTarRnaSeq paper. In particular, Supplemental Table 2, clarifies all the statistical models, inputs and outputs. If…
Comment: Help using rtracklayer for gene ID extraction by James W. MacDonald 67k
Telling me you can't do something without showing what you tried is not helpful. When posting here, try to put yourself in the shoes of peo…
Comment: miRTarRnaseq library by María Calvo • 0
Hello Mercedeh, excuse me for not explaining it adecuately, Im using the "Part3 - Identify significant miRNA mRNA relationships for 2 time …
Answer: Need new version : tx2gene.gencode.v47.csv by Guido Hooiveld ★ 4.1k
Assuming that you would like to import the results from `salmon`, it is highly recommended to now use `tximeta`. By doing so, all required …
Votes
Whether to build DESeq2 model with all data and then contrast groups or subset groups first, build model and then contrast?
Answer: Feature Counts - potential bug with outfile.jcounts
Answer: Feature Counts - potential bug with outfile.jcounts
Answer: Pre-filtering TPM kallisto for ssGSEA / DESeq2
Answer: Mapping Between GenBank ID's and Uniprot
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