Showing : annotationHub • reset
0
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AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 8 weeks ago by 3.1k • written 8 weeks ago by • 0
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4
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174
views
AnnotationHub
AnnotationHub
8 weeks ago junliqilinpan • 0
4
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6
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363
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OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 10 weeks ago by 45k • written 11 weeks ago by • 0
8
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9
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727
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Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 3 months ago by 15k • written 3 months ago by ▴ 30
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2
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200
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AnnotationHub problem
AnnotationHub
4 months ago Jianxuan • 0
4
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8
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528
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Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
5 months ago • updated 5 days ago nattzy94 ▴ 20
1
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3
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364
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How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 7 months ago by ★ 5.5k • written 7 months ago by • 0
2
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10
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739
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Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 7 months ago by ★ 3.2k • written 7 months ago by • 0
0
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0
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157
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LRBaseDbi error
LRBaseDbi AnnotationHub
8 months ago Francois Marchildon ▴ 20
1
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2
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416
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Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 12 months ago by ★ 3.2k • written 12 months ago by • 0
0
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1
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387
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News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
13 months ago shepherl 3.1k
0
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2
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1.2k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
14 months ago rohitsatyam102 ▴ 20
3
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8
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1.6k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 8 weeks ago by ★ 3.2k • written 15 months ago by • 0
11
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13
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1.1k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
18 months ago • updated 15 months ago rohitsatyam102 ▴ 20
8
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20
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ah <- AnnotationHub() Error in UseMethod("filter_"): no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tb…
AnnotationHub dplyr
18 months ago • updated 10 months ago georgia.katsoula ▴ 40
3
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2
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832
views
Issue with AnnotationHub
AnnotationHub
17 months ago rahnaman ▴ 10
1
vote
2
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389
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How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
18 months ago Ezgi ▴ 30
1
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3
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346
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AnnotationHub: failed to load resource name
AnnotationHub
20 months ago ben.ponv • 0
4
votes
17
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1.0k
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annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 20 months ago by 3.5k • written 20 months ago by ▴ 10
4
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2
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534
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News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
21 months ago Johannes Rainer ★ 1.9k
8
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16
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1.7k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 21 months ago by 3.1k • written 21 months ago by ▴ 610
0
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2
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375
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Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 22 months ago by 59k • written 22 months ago by ★ 2.0k
0
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3
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358
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 23 months ago by 59k • written 23 months ago by ▴ 640
2
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4
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530
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.0 years ago by 3.1k • written 2.0 years ago by ★ 2.0k
2
votes
8
replies
514
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 2.1 years ago by 59k • written 2.1 years ago by • 0
1
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5
replies
393
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 2.1 years ago by 3.1k • written 2.1 years ago by • 0
0
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2
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285
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hg38 tracks for AnnotationHub
annotationhub
2.2 years ago Michael Love 36k
0
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1
reply
289
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AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 2.2 years ago by 3.1k • written 2.2 years ago by • 0
0
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8
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1.0k
views
I can't use AnnotationHub()
AnnotationHub
2.4 years ago 755606975 • 0
1
vote
3
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1.2k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
2.4 years ago dmgatti ▴ 10
3
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0
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393
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News: EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation ensembldb EnsDb AnnotationHub News
2.5 years ago Johannes Rainer ★ 1.9k
0
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2
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513
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how to choose annotation file in AnnotationHub web server
annotation AnnotationHub
2.5 years ago 15958021290 ▴ 10
3
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4
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456
views
Are AH52264, AH66175, and AH70594 duplicates?
AnnotationHub
updated 2.6 years ago by 3.1k • written 2.6 years ago by ▴ 140
1
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3
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382
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Problem with AnnotationHub after crash during first download of metadata
AnnotationHub
updated 2.7 years ago by 3.1k • written 2.7 years ago by ▴ 10
7
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44
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1.9k
views
OrgDB download failed via AnnotationHub
annotationhub orgdb
updated 2.9 years ago by 3.1k • written 2.9 years ago by • 0
2
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0
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415
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News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 3.0 years ago by • 0 • written 3.1 years ago by 3.1k
1
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4
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466
views
AnnotationHub Server denied you to change the given directory
annotation annotationhub
updated 3.0 years ago by 3.1k • written 3.0 years ago by ▴ 10
0
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11
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804
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AH134 and other AnnotationHub objects unavailable as "defunct"
AnnotationHub
updated 3.1 years ago by 3.1k • written 3.1 years ago by ▴ 40
1
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1
reply
472
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The total genes items (e.g. ENTREZ ID, SYMBOL) in OrgDb (Salmo salar; [["AH66207"]]) is just half the gene number in NCBI ?!
Annotationhub Annotationdb profiler annotationdbi
3.1 years ago wecai • 0
3
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9
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2.8k
views
AnnotationHub corrupt database
annotationhub
updated 3.2 years ago by 3.1k • written 6.8 years ago by ▴ 180
0
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0
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485
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News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
3.3 years ago shepherl 3.1k
5
votes
12
replies
1.3k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 5 days ago by ★ 1.9k • written 3.5 years ago by ★ 3.2k
1
vote
7
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585
views
News: ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
3.6 years ago shepherl 3.1k
0
votes
5
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586
views
annotationhub: data update
annotationhub
updated 3.8 years ago by 3.1k • written 3.8 years ago by 6.5k
0
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0
replies
521
views
News: ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit annotationdata News
3.8 years ago shepherl 3.1k
1
vote
2
replies
878
views
AnnotationHub, force update snapshot date?
annotationhub
updated 3.8 years ago by 3.1k • written 3.8 years ago by ▴ 70
5
votes
4
replies
783
views
Eliminating repetitive calls to ExperimentHub
experimenthub annotationhub large dataset
4.0 years ago slinker ▴ 20
0
votes
6
replies
780
views
initialization of AnnotationHub() in version 2.12.0 is problematically verbose
AnnotationHub
updated 4.0 years ago by 25k • written 4.0 years ago by ▴ 40
0
votes
0
replies
603
views
News: ensembl 92 gtfs and fasta twobits have been added to AnnotationHub
ensembl gtf 2bit annotationhub News
4.1 years ago shepherl 3.1k
1
vote
0
replies
1.0k
views
News: ensembl 91 gtfs and fasta twobits have been added to AnnotationHub
annotationhub ensembl gtf 2bit News
4.4 years ago shepherl 3.1k
50 results • Page 1 of 1
Recent ...
Replies
Comment: performing the differential binding in ChIP-seq by Bogdan ▴ 640
Thank you. Yes, DiffBind might be a good choice shall we have replicates per sample. Another choice is MA-norm2. Any other well-tested sug…
Comment: Error using read.ilmn and neqc by Gordon Smyth 45k
I edited the title of your question to be more specific.
Answer: Using limma to read Illumina HT-12 v4 data by Gordon Smyth 45k
It seems clear that you haven't exported the correct intensity data from GenomeStudio, and I think you recognize that yourself in your ques…
Answer: performing the differential binding in ChIP-seq by etiennedanis • 0
DiffBind https://bioconductor.org/packages/release/bioc/html/DiffBind.html
Comment: Transcript-level differential expression using DESeq2 by Michael Love 36k
Did you see the part of the vignette where we talk about this? https://bioconductor.org/packages/release/bioc/vignettes/fishpond/inst/doc/…
Votes
Comment: Using vegan::betadisper for determing if I subset my design for DESeq2
Answer: How to best visualize multi-level transcriptomics experiment data?
A: Interpreting results of sample-to-sample PCA/clustering and changing assignment
C: DESeq2 - Differences between plotCounts and normalized counts
C: DESEq2 - Change reference level change "Contrasts" results
Awards • All
Popular Question to andrebolerbarros ▴ 10
Scholar to James W. MacDonald 59k
Scholar to Guido Hooiveld ★ 3.2k
Scholar to Kevin Blighe 3.5k
Scholar to SamGG ▴ 270
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