Showing : ensembldb • reset
0
votes
2
replies
180
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 7 weeks ago by ★ 2.0k • written 7 weeks ago by • 0
0
votes
0
replies
162
views
BiomaRt - Problem to access homolog lists
biomaRt ensembldb
3 months ago ginie.dub • 0
1
vote
0
replies
146
views
News: Ensembl 109 has been released
ensembldb
3 months ago Aleena ▴ 20
0
votes
3
replies
338
views
Uniprot IDs and NCBI taxonomy IDs to coding sequences
ensembldb biodbUniprot
updated 4 months ago by 62k • written 4 months ago by • 0
2
votes
4
replies
265
views
Successor of genesBy Defunct Function
ensembldb
updated 4 months ago by 16k • written 4 months ago by ★ 1.5k
5
votes
3
replies
529
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt ensembldb ensembl
7 months ago • updated 4 months ago jamie.gearing ▴ 60
1
vote
3
replies
354
views
Convert Chromosome postion to gene symbol
biomaRt ensembldb
5 months ago mbansal • 0
2
votes
3
replies
732
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 4 months ago by • 0 • written 6 months ago by ▴ 10
1
vote
2
replies
356
views
News: Ensembl 108 has been released!
biomaRt ensembldb ensembl
written 7 months ago by ▴ 10
0
votes
5
replies
853
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 7 months ago by ★ 3.6k • written 7 months ago by ▴ 10
0
votes
4
replies
572
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
8 months ago • updated 7 months ago dario.beraldi • 0
2
votes
3
replies
888
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 8 months ago by ▴ 60 • written 8 months ago by ▴ 10
0
votes
1
reply
311
views
getBM Error with certain attribute combinations
biomaRt ensembldb
updated 8 months ago by ★ 2.8k • written 8 months ago by • 0
6
votes
2
replies
1.4k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 9 months ago by 660 • written 9 months ago by ▴ 20
0
votes
3
replies
492
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
10 months ago • updated 9 months ago sandmann.t ▴ 70
1
vote
0
replies
394
views
News: Ensembl 107 has been released
ensembldb
10 months ago Aleena ▴ 20
0
votes
1
reply
449
views
bioMart Sscrofa_gene_ensembl getBM() paralogues ERROR
biomaRt ensembldb paralogues
updated 10 months ago by ★ 1.6k • written 10 months ago by • 0
0
votes
3
replies
1.3k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation EnsDb.Hsapiens.v86 Bioconductor package ensembldb
10 months ago elmfinds • 0
2
votes
0
replies
404
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
13 months ago Benjamin ▴ 20
2
votes
2
replies
533
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
15 months ago Matthew Thornton ▴ 350
0
votes
1
reply
1.2k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
updated 15 months ago by 3.8k • written 15 months ago by • 0
8
votes
9
replies
3.1k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 16 months ago by 16k • written 16 months ago by ▴ 40
0
votes
2
replies
791
views
Can't convert dog ensembl IDs into gene names
biomaRt ensembldb
updated 17 months ago by ★ 2.8k • written 17 months ago by • 0
0
votes
3
replies
857
views
Error: package or namespace load failed for 'EnsDb.Mmusculus.v79'
EnsDb.Mmusculus.v79 EnsDb.Mmusculus.v75 ensembldb
updated 17 months ago by ★ 2.0k • written 17 months ago by • 0
1
vote
0
replies
490
views
News: Ensembl 105 has just been released!
ensembl biomaRt ensembldb
17 months ago mchakiachvili ▴ 20
0
votes
0
replies
527
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
18 months ago Liting • 0
10
votes
18
replies
1.8k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 18 months ago by 16k • written 19 months ago by 40k
0
votes
3
replies
702
views
Problem select / ensembl package
ensembldb
19 months ago yinnahm • 0
2
votes
3
replies
1.1k
views
biomart query in R is not matching ensembl website - missing results
ensembldb biomaRt
updated 19 months ago by ★ 6.0k • written 19 months ago by • 0
0
votes
3
replies
595
views
Error using old ensembldb annotations with R 4.0 +
anno EnsDb.Hsapiens.v79 ensDb.HSapiens.v92 AnnotationDbi ensembldb
21 months ago rbenel ▴ 30
1
vote
9
replies
1.1k
views
How to filter EnsDb into another EnsDb object instead of GRange?
ens ensembldb EnsDb.Hsapiens.v86 EnsDb.Rnorvegicus.v75
2.0 years ago • updated 24 months ago Ahdee ▴ 50
1
vote
0
replies
670
views
News: Ensembl 104 has just been released!
ensembldb biomaRt
2.1 years ago mchakiachvili ▴ 20
2
votes
1
reply
629
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 2.1 years ago by ★ 2.0k • written 2.1 years ago by ▴ 490
1
vote
2
replies
683
views
Unable to use ensembldb's "ensDbFromGff()" function on .gff file from NCBI
ensembldb RNASeq
2.1 years ago Torkel • 0
0
votes
2
replies
933
views
News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
2.3 years ago • updated 2.1 years ago mchakiachvili ▴ 20
3
votes
2
replies
1.5k
views
Mapping Ensemble IDs with version numbers using ensembl annotation packages
AnnotationDbi ensembldb
2.3 years ago Ezgi ▴ 30
2
votes
2
replies
1.7k
views
mapping gene type or biotype to ENSEMBL ID
ensembldb biomaRt org.Hs.eg.db Annotation
updated 2.4 years ago by ★ 2.0k • written 2.4 years ago by • 0
1
vote
1
reply
822
views
topGO question
Ensembl ensembldb
updated 2.5 years ago by 62k • written 2.5 years ago by • 0
0
votes
0
replies
537
views
News: Ensembl 102 has been released
Ensembl biomaRt BioMar ensembldb
2.5 years ago mchakiachvili ▴ 20
0
votes
4
replies
740
views
Gene information (GRanges + sequence) to GenBank
granges genomic ranges genbankr ensembldb
updated 2.6 years ago by 62k • written 2.6 years ago by ▴ 20
4
votes
2
replies
1.0k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
2.7 years ago Johannes Rainer ★ 2.0k
0
votes
1
reply
1.0k
views
ensembldb package installation issue
ensembldb package installation BiocManager
updated 2.8 years ago by 3.8k • written 2.8 years ago by • 0
1
vote
1
reply
495
views
Is transcript color accessible through ensembldb? (gold = in both HAVANA+ENSEMBL)
ensembldb
updated 2.9 years ago by ★ 2.0k • written 2.9 years ago by ▴ 160
1
vote
0
replies
693
views
News: ensembldb EnsDb databases for Ensembl release 100 added to AnnotationHub
ensembl annotation ensembldb News
3.0 years ago Johannes Rainer ★ 2.0k
2
votes
1
reply
526
views
protein_domain_source from ensembldb and mapping with PFAM.db
ensembldb pfam.db
3.1 years ago bruce.moran ▴ 30
0
votes
1
reply
1.2k
views
ChIPSeeker with Ensembl IDs
chipseeker Ensembl EnsDb.Mmusculus.v79 ensembldb
3.1 years ago Assa Yeroslaviz ★ 1.5k
2
votes
12
replies
1.1k
views
BioFileCache Problem and not linking to ensembldb problem in TxiMeta
Tximeta BioFileCache Ensembldb
updated 3.3 years ago by 25k • written 3.3 years ago by ▴ 20
3
votes
0
replies
697
views
News: EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation ensembldb EnsDb AnnotationHub News
3.5 years ago Johannes Rainer ★ 2.0k
5
votes
6
replies
2.3k
views
How to build and map to a "pre-mRNA" reference transcriptome for single nucleus RNA-seq data?
tximeta ensembldb single-cell snRNA-seq tximport
updated 3.6 years ago by ★ 3.0k • written 3.6 years ago by ▴ 80
1
vote
0
replies
597
views
News: ensembldb EnsDb databases for Ensembl release 97 added to AnnotationHub
annotation ensembldb Ensembl News
3.9 years ago Johannes Rainer ★ 2.0k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Visualization of negative log CPM values by Gordon Smyth 47k
Sorry, but some of the things you say are not correct. > compound B has 2 statistically significant genes that are up-regulated No, there…
Comment: Visualization of negative log CPM values by ATpoint ★ 2.8k
Applies to both.
Comment: Visualization of negative log CPM values by Sabiha ▴ 10
@atpoint OK, are you referring to the `log2(cpm+1)` or `log2(tpm+1)`
Comment: Visualization of negative log CPM values by Sabiha ▴ 10
@gordonsmyth noted. Related to the graphs above, the table below is the output from `limma`, and compound B has 2 statistically significant…
Comment: Visualization of negative log CPM values by Gordon Smyth 47k
> negative scale might perhaps indicate gene is too low to be really expressed. Yes, negative logCPMs do mean that the gene is expressed a…
Votes
Comment: Visualization of negative log CPM values
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
Filtering low intensity probes in microarray data
Comment: Visualization of negative log CPM values
Adjusting for baseline when having longitudinal data, mixed model and no treatment
Awards • All
Popular Question to ioannis.vardaxis ▴ 30
Scholar to Erqiang Hu ▴ 50
Popular Question to Matthew Thornton ▴ 350
Scholar to Hervé Pagès 16k
Popular Question to Habil Zare ▴ 170
Locations • All
WEHI, Melbourne, Australia, 8 minutes ago
Seattle, WA, United States, 15 minutes ago
Melbourne, Australia, 17 minutes ago
Japan, 23 minutes ago
United States, 1 hour ago
Traffic: 227 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6