Showing : Ensembldb • reset
1
vote
0
replies
116
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
4 weeks ago Aleena ▴ 30
2
votes
5
replies
351
views
get BM error
ensembldb
updated 7 weeks ago by 66k • written 7 weeks ago by • 0
10
votes
41
replies
6.1k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 23 days ago by • 0 • written 5.6 years ago by ★ 4.0k
0
votes
1
reply
232
views
Convert transcriptomic bam to genomic bam?
ensembldb transcriptome genome coordinateconversion
updated 10 weeks ago by 42k • written 10 weeks ago by ▴ 10
0
votes
1
reply
289
views
Canonical transcripts Mus musculus
TxDb.Mmusculus.UCSC.mm9.knownGene ensembldb GenomicFeatures Mus_musculus
updated 4 months ago by 66k • written 4 months ago by ▴ 10
2
votes
4
replies
470
views
seqlevelsStyle() not working
ensembldb genomei GenomeInfoDb
written 4 months ago by ▴ 70
1
vote
1
reply
280
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 4 months ago by • 0 • written 4 months ago by ▴ 10
2
votes
3
replies
554
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
6 months ago R_Page • 0
2
votes
5
replies
964
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
7 months ago j_denton • 0
0
votes
4
replies
618
views
Retrieve gene ontologies (GO) for genes and a species by REST API
GO ensembldb
7 months ago Rockbar • 0
0
votes
10
replies
888
views
ensembldb::getGenomeTwoBitFile() not working for many species
AnnotationHubSoftware ensembldb
updated 8 months ago by 66k • written 8 months ago by • 0
7
votes
6
replies
4.5k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 8 months ago by 700 • written 22 months ago by ▴ 20
3
votes
1
reply
1.6k
views
Mouse to Human Genes using bioconductor
ensembldb
updated 10 months ago by 66k • written 10 months ago by ▴ 10
0
votes
1
reply
525
views
Relationship between gene_id and transcript_id genomic coordinates
Rsubread ensembldb
updated 10 months ago by 66k • written 10 months ago by • 0
0
votes
1
reply
1.6k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 10 months ago by 42k • written 11 months ago by ▴ 30
0
votes
2
replies
1.1k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 14 months ago by ★ 2.1k • written 14 months ago by • 0
0
votes
0
replies
750
views
BiomaRt - Problem to access homolog lists
biomaRt ensembldb
16 months ago ginie.dub • 0
1
vote
0
replies
709
views
News: Ensembl 109 has been released
ensembldb
16 months ago Aleena ▴ 30
0
votes
3
replies
1.1k
views
Uniprot IDs and NCBI taxonomy IDs to coding sequences
ensembldb biodbUniprot
updated 16 months ago by 66k • written 16 months ago by • 0
2
votes
4
replies
767
views
Successor of genesBy Defunct Function
ensembldb
updated 17 months ago by 16k • written 17 months ago by ★ 1.5k
5
votes
3
replies
1.6k
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt ensembldb ensembl
19 months ago • updated 17 months ago jamie.gearing ▴ 60
1
vote
3
replies
888
views
Convert Chromosome postion to gene symbol
biomaRt ensembldb
18 months ago mbansal • 0
2
votes
3
replies
1.8k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 16 months ago by • 0 • written 18 months ago by ▴ 10
1
vote
2
replies
806
views
News: Ensembl 108 has been released!
biomaRt ensembldb ensembl
written 20 months ago by ▴ 10
0
votes
5
replies
2.1k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 20 months ago by ★ 4.0k • written 20 months ago by ▴ 30
0
votes
4
replies
1.1k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
20 months ago dario.beraldi • 0
2
votes
3
replies
2.4k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 20 months ago by ▴ 120 • written 20 months ago by ▴ 10
0
votes
1
reply
737
views
getBM Error with certain attribute combinations
biomaRt ensembldb
updated 21 months ago by ★ 4.2k • written 21 months ago by • 0
0
votes
3
replies
1.3k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
22 months ago sandmann.t ▴ 70
1
vote
0
replies
851
views
News: Ensembl 107 has been released
ensembldb
23 months ago Aleena ▴ 30
0
votes
1
reply
1.1k
views
bioMart Sscrofa_gene_ensembl getBM() paralogues ERROR
biomaRt ensembldb paralogues
updated 23 months ago by ★ 1.6k • written 23 months ago by • 0
0
votes
3
replies
3.1k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation EnsDb.Hsapiens.v86 Bioconductor package ensembldb
23 months ago elmfinds • 0
2
votes
0
replies
739
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
2.2 years ago Benjamin ▴ 30
2
votes
2
replies
1.2k
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
2.3 years ago Matthew Thornton ▴ 360
0
votes
2
replies
2.7k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 2.3 years ago by • 0
9
votes
11
replies
6.2k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 3 months ago by 3.9k • written 2.4 years ago by ▴ 40
0
votes
2
replies
1.5k
views
Can't convert dog ensembl IDs into gene names
biomaRt ensembldb
updated 2.5 years ago by ★ 4.2k • written 2.5 years ago by • 0
0
votes
3
replies
1.4k
views
Error: package or namespace load failed for 'EnsDb.Mmusculus.v79'
EnsDb.Mmusculus.v79 EnsDb.Mmusculus.v75 ensembldb
updated 2.5 years ago by ★ 2.1k • written 2.5 years ago by • 0
1
vote
0
replies
816
views
News: Ensembl 105 has just been released!
ensembl biomaRt ensembldb
2.5 years ago mchakiachvili ▴ 20
0
votes
1
reply
1.0k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.6 years ago by • 0
10
votes
18
replies
2.9k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 2.6 years ago by 16k • written 2.6 years ago by 42k
0
votes
3
replies
1.1k
views
Problem select / ensembl package
ensembldb
2.6 years ago yinnahm • 0
2
votes
3
replies
1.8k
views
biomart query in R is not matching ensembl website - missing results
ensembldb biomaRt
updated 2.7 years ago by ★ 6.5k • written 2.7 years ago by • 0
0
votes
3
replies
1.0k
views
Error using old ensembldb annotations with R 4.0 +
anno EnsDb.Hsapiens.v79 ensDb.HSapiens.v92 AnnotationDbi ensembldb
2.8 years ago rbenel ▴ 40
1
vote
9
replies
2.0k
views
How to filter EnsDb into another EnsDb object instead of GRange?
ens ensembldb EnsDb.Hsapiens.v86 EnsDb.Rnorvegicus.v75
3.0 years ago Ahdee ▴ 50
1
vote
0
replies
1.0k
views
News: Ensembl 104 has just been released!
ensembldb biomaRt
3.1 years ago mchakiachvili ▴ 20
2
votes
1
reply
1.6k
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 3.2 years ago by ★ 2.1k • written 3.2 years ago by ▴ 510
1
vote
2
replies
1.2k
views
Unable to use ensembldb's "ensDbFromGff()" function on .gff file from NCBI
ensembldb RNASeq
3.2 years ago Torkel • 0
0
votes
2
replies
1.4k
views
News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
3.3 years ago • updated 3.1 years ago mchakiachvili ▴ 20
3
votes
2
replies
2.6k
views
Mapping Ensemble IDs with version numbers using ensembl annotation packages
AnnotationDbi ensembldb
3.3 years ago Ezgi ▴ 60
50 results • Page 1 of 1
Recent ...
Replies
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0
Thank you for looking into this and for your explanation! As a follow-up, would it be possible in future releases of featureCounts to pro…
Comment: error loading collectTRI regulon by silvaesilva.da • 0
Fantastic. Thank you very much. Everything has been sorted out
Answer: DESeq2 returns results for group with just one replicate by James W. MacDonald 66k
There is no problem having only one replicate per group, so long as you have replicates for other groups. The degrees of freedom are based …
Answer: Limma model.matrix design with batch effect and different life stages proportion by Masongeorge • 0
Thanks for this post. i found it helpful for my own issue that was occurring on the backend of this page.
Comment: error loading collectTRI regulon by deeenes ▴ 50
I fixed the original, Ensembl HTTP 403 error only now, [see here][1]. If you've seen it gone earlier today, only shows that this error appe…
Votes
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
Answer: DESeq2 returns results for group with just one replicate
Answer: DESeq2 returns results for group with just one replicate
Comment: error loading collectTRI regulon
A: Scaling option in fastMNN
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