Showing : Annotationhub • reset
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
10
votes
41
replies
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
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
9
votes
14
replies
7.7k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 5 months ago by 4.1k • written 2.9 years ago by ▴ 40
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
8
votes
4
replies
4.8k
views
Tutorial: Epigenomics RoadMap Project files now accessible via AnnotationHub
AnnotationHub Epigenomics BigData RoadMap Project NIH Tutorial
updated 7.6 years ago by • 0 • written 9.6 years ago by ▴ 390
7
votes
44
replies
6.4k
views
OrgDB download failed via AnnotationHub
annotationhub orgdb
updated 5.4 years ago by 4.1k • written 5.5 years ago by ▴ 10
7
votes
11
replies
6.6k
views
Error in sqliteSendQuery(conn, statement): error in statement: no such table: c.probes
edgeR limma annotationhub kegga annotationdbi
updated 8.4 years ago by ▴ 20 • written 8.8 years ago by ▴ 20
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
5
votes
13
replies
1.6k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
7 weeks ago KABILAN • 0
5
votes
11
replies
3.0k
views
Certificate problem with ExperimentHub / AnnotationHub
software error curatedmetagenomicdata annotationhub experimenthub
updated 8.0 years ago by ★ 1.1k • written 8.0 years ago by ▴ 10
5
votes
2
replies
1.5k
views
AnnotationHub: two broad peaks from same url are not the same
annotationhub bugs encode bed
8.0 years ago wcstcyx ▴ 30
5
votes
4
replies
1.6k
views
Eliminating repetitive calls to ExperimentHub
experimenthub annotationhub large dataset
6.6 years ago slinker ▴ 20
4
votes
7
replies
1.9k
views
AnnotationHub and ExperimentHub make "~" directory in my home
annotationhub experimenthub
updated 8.3 years ago by ★ 6.8k • written 8.3 years ago by 43k
4
votes
3
replies
2.1k
views
Error installing AnnotationHub on Fedora
Annotationhub curl httr fedora
updated 8.6 years ago by ▴ 30 • written 9.3 years ago by ▴ 10
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
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
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
4
votes
10
replies
1.4k
views
Suggestion: spinning wheel for AnnotationHub
annotationhub
updated 7.2 years ago by 4.1k • written 7.3 years ago by 43k
4
votes
1
reply
3.9k
views
getting the longest transcript by gene from Refseq
refseq annotationhub
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 50
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
3
votes
3
replies
1.6k
views
Broken AnnotationHub resource (AH25517 | wgEncodeOpenChromDnaseGm12878Pk.narrowPeak.gz)
annotationhub encode
updated 8.7 years ago by ★ 6.8k • written 8.7 years ago by ▴ 740
3
votes
4
replies
1.4k
views
Are AH52264, AH66175, and AH70594 duplicates?
AnnotationHub
updated 5.2 years ago by 4.1k • written 5.2 years ago by ▴ 160
3
votes
13
replies
3.0k
views
Org.db: why a supposed unique key (ID) has multiple entries?
annotationhub organismdb orgdb unsupported organisms
updated 8.9 years ago by ★ 6.8k • written 8.9 years ago by ★ 4.1k
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
3
votes
2
replies
2.4k
views
Issue with AnnotationHub
AnnotationHub
4.0 years ago rahnaman ▴ 10
3
votes
9
replies
4.3k
views
AnnotationHub corrupt database
annotationhub
updated 5.8 years ago by 4.1k • written 9.4 years ago by ▴ 180
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
3
votes
2
replies
1.8k
views
AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub roadmap project rpkm data.frame
8.2 years ago • updated 8.1 years ago wcstcyx ▴ 30
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
5.1 years ago Johannes Rainer ★ 2.1k
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
3
votes
1
reply
1.5k
views
AnnotationHub: confusing pValue/qValue for (some) Roadmap records
roadmap project annotationhub epigenomics big data
updated 8.6 years ago by ★ 6.8k • written 8.6 years ago by ▴ 350
2
votes
2
replies
2.1k
views
Normal Patient Samples from GSE62944
GSE62944 annotationhub differentialexpression
updated 8.7 years ago by ▴ 390 • written 8.7 years ago by • 0
2
votes
2
replies
1.5k
views
how to choose annotation file in AnnotationHub web server
annotation AnnotationHub
5.1 years ago 15958021290 ▴ 10
2
votes
12
replies
2.7k
views
AnnotationHub-cant extract database
annotationhub
updated 7.7 years ago by ★ 6.8k • written 7.7 years ago by • 0
2
votes
1
reply
718
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
2
votes
8
replies
1.9k
views
Problem fetching resources from AnnotationHub, error 403
AnnotationHub
updated 9.1 years ago by ★ 6.8k • written 9.1 years ago by ★ 2.1k
2
votes
0
replies
1.2k
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 5.6 years ago by • 0 • written 5.6 years ago by 4.1k
2
votes
0
replies
3.7k
views
News: Gencode GFF3 and FASTA files now available via AnnotationHub
AnnotationHub Gencode GFF3 FASTA News
9.3 years ago Sonali Arora ▴ 390
2
votes
10
replies
2.9k
views
Getting Bioconductor genome wide annotation for Candida auris
AnnotationFilter annotationTools AnnotationHub AnnotationData
updated 3.2 years ago by ★ 4.1k • written 3.2 years ago by • 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
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
2
votes
12
replies
3.5k
views
Error: failed to load 'AnnotationHub' resource
biomart annotationhub
updated 9.1 years ago by 25k • written 9.1 years ago by ▴ 10
2
votes
6
replies
1.7k
views
R getting "stuck" with RoadMap resource retrieval through AnnotationHub
roadmap project annotationhub
7.6 years ago vanesa_1230 • 0
2
votes
0
replies
985
views
News: ensembl 89 gtfs and fasta twobits have been added to AnnotationHub
bioconductor annotationhub ensembl89 News
7.5 years ago shepherl 4.1k
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
2
votes
2
replies
998
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19 rtracklayer AnnotationHub
2.3 years ago Lenny186 • 0
1
vote
3
replies
4.0k
views
Problem using display() function on RStudio
display rstudio annotationhub
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 10
1
vote
4
replies
1.5k
views
AnnotationHub Server denied you to change the given directory
annotation annotationhub
updated 5.6 years ago by 4.1k • written 5.6 years ago by ▴ 10
1
vote
3
replies
2.3k
views
annotation of SV (Structural Variants)
variantannotation annotationhub
7.7 years ago Bogdan ▴ 670
50 results • Page 1 of 1
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Comment: Easiest way to convert read10xMolInfo data into a dataframe in R with gene label by daldabrown9 • 0
For more info visit us on [R350 status check][1] [1]: https://sassagrantstatuscheck.co.za/
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 …
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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