Showing : annotationHub • reset
3
votes
3
replies
511
views
AnnotationHub/ExperimentHub resources backup
AnnotationHub HubPub ExperimentHub
updated 3 months ago by 68k • written 3 months ago by ▴ 50
0
votes
1
reply
613
views
Help using reduceSimMatrix with a custom annotation
AnnotationHub GOSemSim rrvgo
updated 4 months ago by ▴ 80 • written 10 months ago by • 0
1
vote
3
replies
1.1k
views
Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malformed error
signac AnnotationHub
written 5 months ago by ▴ 110
5
votes
13
replies
2.3k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
10 months ago KABILAN • 0
0
votes
3
replies
1.4k
views
makeOrgPackageFromGAF() error with gene ID "GID"
AnnotationHub AnnotationDbi AnnotationForge
13 months ago Anna • 0
1
vote
5
replies
1.9k
views
EnsDb: bad_weak_ptr
AnnotationHub BiocFileCache
14 months ago Lluís Revilla Sancho ▴ 760
0
votes
5
replies
1.9k
views
Cannot connect to annotationhub server
AnnotationHub ExperimentHub
updated 14 months ago by 4.2k • written 14 months ago by • 0
0
votes
0
replies
554
views
News: AnnotationHub and ExperimentHub Access Downtime
AnnotationHub ExperimentHub
14 months ago shepherl 4.2k
1
vote
1
reply
612
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 15 months ago by 68k • written 15 months ago by • 0
6
votes
12
replies
8.3k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
22 months ago • updated 16 months ago shepherl 4.2k
10
votes
41
replies
9.4k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 15 months ago by • 0 • written 6.8 years ago by ★ 4.1k
1
vote
6
replies
1.5k
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 16 months ago by ▴ 230 • written 17 months ago by • 0
2
votes
1
reply
1.1k
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 18 months ago by 43k • written 18 months ago by • 0
0
votes
0
replies
598
views
Annotatr Duplicate Entries
annotatr AnnotationHub
19 months ago hayleyw • 0
2
votes
28
replies
6.7k
views
Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and annotation forge
AnnotationHub AnnotationForge Pseudomonas_aeruginosa
updated 21 months ago by 68k • written 2.7 years ago by ▴ 10
3
votes
4
replies
2.8k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 22 months ago by ★ 4.1k • written 22 months ago by • 0
1
vote
2
replies
1.3k
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
22 months ago Thon • 0
0
votes
1
reply
1.1k
views
multiGSEA package in R not appropriately assigning metabolites to pathways?
metaboliteIDmapping AnnotationHub multiGSEA
2.6 years ago Thomas • 0
2
votes
2
replies
1.2k
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
3.0 years ago Lenny186 • 0
0
votes
3
replies
2.4k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
3.1 years ago • updated 3.0 years ago sandmann.t ▴ 70
9
votes
21
replies
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 3.1 years ago by ▴ 10 • written 4.8 years ago by ▴ 40
0
votes
2
replies
2.5k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 3.5 years ago by 4.2k • written 3.5 years ago by ▴ 70
0
votes
4
replies
1.9k
views
AnnotationHub
AnnotationHub
3.5 years ago junliqilinpan • 0
4
votes
6
replies
3.9k
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub OrganismDbi org.Hs.eg.db
updated 3.5 years ago by 52k • written 3.5 years ago by • 0
9
votes
14
replies
9.6k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 13 months ago by 4.2k • written 3.6 years ago by ▴ 40
0
votes
2
replies
1.6k
views
AnnotationHub problem
AnnotationHub
3.6 years ago Jianxuan • 0
4
votes
8
replies
2.9k
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
3.7 years ago • updated 3.3 years ago nattzy94 ▴ 20
1
vote
3
replies
1.9k
views
How delete the AnnotationHub downloaded datasets
AnnotationHub
updated 3.9 years ago by ★ 6.6k • written 3.9 years ago by • 0
2
votes
10
replies
3.4k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 3.9 years ago by ★ 4.1k • written 3.9 years ago by • 0
0
votes
0
replies
851
views
LRBaseDbi error
LRBaseDbi AnnotationHub
4.0 years ago Francois Marchildon ▴ 20
1
vote
2
replies
2.5k
views
Translating Solanum lycopersum gene IDs to ENTREZIDs for GO enrichment analysis using clusterProfiler
OrgDb Bioconductor AnnotationHub clusterProfiler
updated 4.3 years ago by ★ 4.1k • written 4.3 years ago by • 0
0
votes
1
reply
1.6k
views
News: Updates to BiocFileCache, AnnotationHub, and ExperimentHub
BiocFileCache AnnotationHub ExperimentHub cache
4.4 years ago shepherl 4.2k
0
votes
3
replies
6.7k
views
Convert Agilent Probe ID to gene IDs/Symbols
AnnotationHub biomaRt
updated 3.0 years ago by • 0 • written 4.4 years ago by ▴ 20
3
votes
11
replies
7.3k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 19 months ago by ★ 4.1k • written 4.6 years ago by • 0
11
votes
13
replies
6.2k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic AnnotationHub GenomicRanges org.Hs.eg.db
4.8 years ago • updated 4.6 years ago rohitsatyam102 ▴ 20
3
votes
2
replies
2.7k
views
Issue with AnnotationHub
AnnotationHub
4.8 years ago rahnaman ▴ 10
1
vote
2
replies
1.6k
views
How to mimic biomaRt results with AnnotationHub?
biomaRt AnnotationHub
4.8 years ago Ezgi ▴ 60
1
vote
3
replies
1.5k
views
AnnotationHub: failed to load resource name
AnnotationHub
5.0 years ago ben.ponv • 0
4
votes
17
replies
3.6k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 5.0 years ago by ★ 4.0k • written 5.0 years ago by ▴ 10
4
votes
2
replies
2.3k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
5.0 years ago Johannes Rainer ★ 2.1k
8
votes
16
replies
9.2k
views
Cannot connect to ExperimentHub server
ExperimentHub AnnotationHub SingleR
updated 5.1 years ago by 4.2k • written 5.1 years ago by ▴ 680
0
votes
2
replies
1.9k
views
Can't select GO from AnnotationHub orgDB packages
GO.db AnnotationHub OrgDB
updated 5.1 years ago by 68k • written 5.1 years ago by ★ 2.0k
0
votes
3
replies
1.6k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 670
3
votes
6
replies
3.3k
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub OrgDb snapshotDate
updated 3.1 years ago by 4.2k • written 5.3 years ago by ★ 2.0k
2
votes
8
replies
2.7k
views
gene enrichment using enrichGO function throuth annotationHub orgDb
software error enrichGO annotationHub clusterProfiler Job
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
1
vote
5
replies
2.4k
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 5.4 years ago by 4.2k • written 5.4 years ago by • 0
0
votes
2
replies
1.4k
views
hg38 tracks for AnnotationHub
annotationhub
5.5 years ago Michael Love 43k
0
votes
1
reply
1.3k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 5.5 years ago by 4.2k • written 5.5 years ago by • 0
0
votes
8
replies
3.7k
views
I can't use AnnotationHub()
AnnotationHub
5.6 years ago 755606975 • 0
1
vote
3
replies
2.9k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
5.7 years ago dmgatti ▴ 10
130 results • Page 1 of 3
Recent ...
Replies
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Not sure I understand. You ask how to do something and then show how one would do so.
Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10
Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I have checked DEGs between Solvent Control (SC) of FP and LP and there are noticebale differences in terms of DEGs. ``` # Checking SC in …
Answer: A0A287BB68 not recognized as UNPROT key in org.Ss.eg.db using AnnotationDbi::sel by James W. MacDonald 68k
Apparently it's been over-ridden by a different UniProtKB ID ``` > select(org.Ss.eg.db, "MYH11", "UNIPROT", "SYMBOL") 'select()' retu…
Votes
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
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