Showing : AnnotationHub • reset
0
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178
views
Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
12 weeks ago daccar98 • 0
5
votes
13
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1.7k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
3 months ago KABILAN • 0
0
votes
3
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794
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
5 months ago Anna • 0
1
vote
5
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1.0k
views
EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
7 months ago Lluís Revilla Sancho ▴ 760
0
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5
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1.3k
views
Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 7 months ago by 4.1k • written 7 months ago by • 0
0
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0
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331
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News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
7 months ago shepherl 4.1k
1
vote
1
reply
415
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 8 months ago by 67k • written 8 months ago by • 0
6
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12
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7.3k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
15 months ago • updated 9 months ago shepherl 4.1k
10
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41
replies
7.6k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 8 months ago by • 0 • written 6.2 years ago by ★ 4.1k
1
vote
6
replies
1.1k
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 9 months ago by ▴ 200 • written 10 months ago by • 0
2
votes
1
reply
789
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 11 months ago by 43k • written 11 months ago by • 0
0
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0
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466
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Annotatr Duplicate Entries
annotatr AnnotationHub
12 months ago hayleyw • 0
2
votes
28
replies
5.7k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 14 months ago by 67k • written 2.2 years ago by ▴ 10
3
votes
4
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2.0k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 15 months ago by ★ 4.1k • written 15 months ago by • 0
1
vote
2
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1.1k
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
15 months ago Thon • 0
0
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1
reply
943
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
2.0 years ago • updated 24 months ago Thomas • 0
2
votes
2
replies
1.0k
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
2.4 years ago Lenny186 • 0
0
votes
3
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1.9k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.5 years ago sandmann.t ▴ 70
9
votes
21
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16k
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 2.5 years ago by ▴ 10 • written 4.2 years ago by ▴ 40
0
votes
2
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2.3k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 2.9 years ago by 4.1k • written 2.9 years ago by ▴ 70
0
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4
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1.6k
views
AnnotationHub
AnnotationHub
2.9 years ago junliqilinpan • 0
4
votes
6
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3.2k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 2.9 years ago by 52k • written 2.9 years ago by • 0
9
votes
14
replies
8.0k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 6 months ago by 4.1k • written 3.0 years ago by ▴ 40
0
votes
2
replies
1.4k
views
AnnotationHub problem
AnnotationHub
3.1 years ago Jianxuan • 0
4
votes
8
replies
2.4k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
3.2 years ago • updated 2.7 years ago nattzy94 ▴ 20
1
vote
3
replies
1.6k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 3.3 years ago by ★ 6.6k • written 3.3 years ago by • 0
2
votes
10
replies
3.0k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 3.3 years ago by ★ 4.1k • written 3.3 years ago by • 0
0
votes
0
replies
758
views
LRBaseDbi error
LRBaseDbi AnnotationHub
3.4 years ago Francois Marchildon ▴ 20
1
vote
2
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1.9k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 3.7 years ago by ★ 4.1k • written 3.7 years ago by • 0
0
votes
1
reply
1.4k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
3.8 years ago shepherl 4.1k
0
votes
3
replies
5.4k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 2.5 years ago by • 0 • written 3.9 years ago by ▴ 20
3
votes
11
replies
6.3k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 12 months ago by ★ 4.1k • written 4.0 years ago by • 0
11
votes
13
replies
5.3k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
4.2 years ago • updated 4.0 years ago rohitsatyam102 ▴ 20
3
votes
2
replies
2.4k
views
Issue with AnnotationHub
AnnotationHub
4.2 years ago rahnaman ▴ 10
1
vote
2
replies
1.4k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
4.2 years ago Ezgi ▴ 60
1
vote
3
replies
1.3k
views
AnnotationHub: failed to load resource name
AnnotationHub
4.4 years ago ben.ponv • 0
4
votes
17
replies
3.1k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 4.4 years ago by ★ 4.0k • written 4.4 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
4.4 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
8.2k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 4.5 years ago by 4.1k • written 4.5 years ago by ▴ 680
0
votes
2
replies
1.7k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 4.5 years ago by 67k • written 4.5 years ago by ★ 2.0k
0
votes
3
replies
1.4k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 4.7 years ago by 67k • written 4.7 years ago by ▴ 670
3
votes
6
replies
2.9k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 2.5 years ago by 4.1k • written 4.7 years ago by ★ 2.0k
2
votes
8
replies
2.2k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 4.8 years ago by 67k • written 4.8 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 4.8 years ago by 4.1k • written 4.8 years ago by • 0
0
votes
2
replies
1.2k
views
hg38 tracks for AnnotationHub
annotationhub
4.9 years ago Michael Love 43k
0
votes
1
reply
1.2k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.9 years ago by 4.1k • written 4.9 years ago by • 0
0
votes
8
replies
3.4k
views
I can't use AnnotationHub()
AnnotationHub
5.1 years ago 755606975 • 0
1
vote
3
replies
2.7k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
5.1 years ago dmgatti ▴ 10
3
votes
0
replies
1.4k
views
News: EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation ensembldb EnsDb AnnotationHub News
5.2 years ago Johannes Rainer ★ 2.1k
2
votes
2
replies
1.5k
views
how to choose annotation file in AnnotationHub web server
annotation AnnotationHub
5.2 years ago 15958021290 ▴ 10
50 results • Page 1 of 1
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Comment: input for singR function by iamin053 • 0
Hi Paria, I'm wondering if you were able to get an answer on this please. I would greatly appreciate any comments!
Comment: build samplesheet and plot profile by yf • 0
![enter image description here][1] [1]: /media/images/8ea93bd0-bc90-443d-a332-4701f54a
Answer: I am having issues with bowtie2_build by James W. MacDonald 67k
Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…
Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k
Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…
Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Votes
Answer: Is it always preferable to recount library sizes of DGEList object in edgeR afte
A: Doubt about the "zero expression" genes or genes with no reads at all in the co
Answer: Unable to install nloptr
Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?
C: How does edgeR cpm function calculate log(CPM) values?
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