Showing : annotationHub • reset
0
votes
3
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443
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
7 weeks ago Anna • 0
1
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5
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542
views
EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
3 months ago Lluís Revilla Sancho ▴ 750
0
votes
5
replies
733
views
Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 3 months ago by 4.0k • written 3 months ago by • 0
0
votes
0
replies
205
views
News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
3 months ago shepherl 4.0k
1
vote
1
reply
311
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 4 months ago by 67k • written 4 months ago by • 0
6
votes
12
replies
6.4k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
11 months ago • updated 5 months ago shepherl 4.0k
10
votes
41
replies
6.9k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 4 months ago by • 0 • written 5.9 years ago by ★ 4.1k
1
vote
6
replies
777
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 5 months ago by ▴ 200 • written 5 months ago by • 0
2
votes
1
reply
597
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 7 months ago by 42k • written 7 months ago by • 0
0
votes
0
replies
345
views
Annotatr Duplicate Entries
annotatr AnnotationHub
8 months ago hayleyw • 0
2
votes
28
replies
5.1k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 10 months ago by 67k • written 22 months ago by ▴ 10
3
votes
4
replies
1.6k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 11 months ago by ★ 4.1k • written 11 months ago by • 0
1
vote
2
replies
833
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
11 months ago Thon • 0
0
votes
1
reply
848
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
20 months ago Thomas • 0
2
votes
2
replies
945
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
2.1 years ago Lenny186 • 0
0
votes
3
replies
1.6k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.2 years ago • updated 2.1 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 2.2 years ago by ▴ 10 • written 3.9 years ago by ▴ 40
0
votes
2
replies
2.1k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 2.5 years ago by 4.0k • written 2.5 years ago by ▴ 70
0
votes
4
replies
1.4k
views
AnnotationHub
AnnotationHub
2.5 years ago junliqilinpan • 0
4
votes
6
replies
2.7k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 2.6 years ago by 51k • written 2.6 years ago by • 0
9
votes
14
replies
7.1k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 10 weeks ago by 4.0k • written 2.7 years ago by ▴ 40
0
votes
2
replies
1.2k
views
AnnotationHub problem
AnnotationHub
2.7 years ago Jianxuan • 0
4
votes
8
replies
2.2k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
2.8 years ago • updated 2.4 years ago nattzy94 ▴ 20
1
vote
3
replies
1.4k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 2.9 years ago by ★ 6.5k • written 3.0 years ago by • 0
2
votes
10
replies
2.7k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 2.9 years ago by ★ 4.1k • written 2.9 years ago by • 0
0
votes
0
replies
703
views
LRBaseDbi error
LRBaseDbi AnnotationHub
3.1 years ago Francois Marchildon ▴ 20
1
vote
2
replies
1.7k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.4 years ago by ★ 4.1k • written 3.4 years ago by • 0
0
votes
1
reply
1.2k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
3.5 years ago shepherl 4.0k
0
votes
3
replies
4.8k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 2.1 years ago by • 0 • written 3.5 years ago by ▴ 20
3
votes
11
replies
5.7k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 7 months ago by ★ 4.1k • written 3.7 years ago by • 0
11
votes
13
replies
4.8k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
3.8 years ago • updated 3.7 years ago rohitsatyam102 ▴ 20
3
votes
2
replies
2.3k
views
Issue with AnnotationHub
AnnotationHub
3.8 years ago rahnaman ▴ 10
1
vote
2
replies
1.3k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
3.9 years ago Ezgi ▴ 60
1
vote
3
replies
1.2k
views
AnnotationHub: failed to load resource name
AnnotationHub
4.1 years ago ben.ponv • 0
4
votes
17
replies
2.9k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by ▴ 10
4
votes
2
replies
1.9k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
4.1 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
7.3k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 4.2 years ago by 4.0k • written 4.2 years ago by ▴ 660
0
votes
2
replies
1.5k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.2 years ago by 67k • written 4.2 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 4.3 years ago by 67k • written 4.3 years ago by ▴ 670
3
votes
6
replies
2.6k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.2 years ago by 4.0k • written 4.4 years ago by ★ 2.0k
2
votes
8
replies
2.0k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 4.4 years ago by 67k • written 4.4 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 4.5 years ago by 4.0k • written 4.5 years ago by • 0
0
votes
2
replies
1.1k
views
hg38 tracks for AnnotationHub
annotationhub
4.6 years ago Michael Love 42k
0
votes
1
reply
1.1k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.6 years ago by 4.0k • written 4.6 years ago by • 0
0
votes
8
replies
3.1k
views
I can't use AnnotationHub()
AnnotationHub
4.7 years ago 755606975 • 0
1
vote
3
replies
2.5k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
4.8 years ago dmgatti ▴ 10
3
votes
0
replies
1.2k
views
News: EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation ensembldb EnsDb AnnotationHub News
4.8 years ago Johannes Rainer ★ 2.1k
2
votes
2
replies
1.4k
views
how to choose annotation file in AnnotationHub web server
annotation AnnotationHub
4.9 years ago 15958021290 ▴ 10
3
votes
4
replies
1.3k
views
Are AH52264, AH66175, and AH70594 duplicates?
AnnotationHub
updated 4.9 years ago by 4.0k • written 4.9 years ago by ▴ 160
1
vote
3
replies
1.2k
views
Problem with AnnotationHub after crash during first download of metadata
AnnotationHub
updated 5.1 years ago by 4.0k • written 5.1 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: How should I run ssGSEA Hallmark Enrichment Analysis? by Ginny • 0
I think the other side of this question is that the non protein coding genes would be in the "background", they would influence the ranking…
Comment: ISO a solution to rank-order introns by transcript by James W. MacDonald 67k
There's an error in the last line. Note that `sapply(lengths(z), seq_len)` will return a `list` because the lengths vary. We need a vector,…
Comment: BiomaRt - improved access to Ensembl ? by Mike Smith ★ 6.5k
Why do you want to use `useMart()` rather than `useEnsembl()`? They are essentially the same (`useEnsembl()` will eventually call `useMart(…
Comment: Installing Bioconductor packages in Docker by devarti.mahakalkar • 0
I have installed BiocManager on my base image rather than having it as base image. RUN Rscript -e "install.packages('BiocManager', re…
Comment: Meta-analysis on RNA-seq data sets by Travis • 0
Thank you for your suggestions and explanation of your approach!
Votes
Answer: ISO a solution to rank-order introns by transcript
Answer: ISO a solution to rank-order introns by transcript
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: addPatternDensity in 'qsea' takes too much time
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Scholar to James W. MacDonald 67k
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