Showing : Ensembldb • reset
1
vote
3
replies
640
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 25 days ago by 67k • written 7 months ago by ▴ 10
0
votes
0
replies
186
views
Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
4 weeks ago Aleena ▴ 30
1
vote
1
reply
429
views
biomaRt getSequence(): Error in .lock2
ensembldb getSequence
updated 8 weeks ago by ★ 6.5k • written 8 weeks ago by ▴ 10
1
vote
0
replies
257
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
4 months ago Aleena ▴ 30
2
votes
5
replies
528
views
get BM error
ensembldb
updated 5 months ago by 67k • written 5 months ago by • 0
10
votes
41
replies
6.9k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 4 months ago by • 0 • written 5.9 years ago by ★ 4.1k
0
votes
1
reply
393
views
Convert transcriptomic bam to genomic bam?
ensembldb transcriptome genome coordinateconversion
updated 5 months ago by 42k • written 6 months ago by ▴ 10
0
votes
1
reply
459
views
Canonical transcripts Mus musculus
TxDb.Mmusculus.UCSC.mm9.knownGene ensembldb GenomicFeatures Mus_musculus
updated 7 months ago by 67k • written 7 months ago by ▴ 10
2
votes
4
replies
761
views
seqlevelsStyle() not working
ensembldb genomei GenomeInfoDb
written 7 months ago by ▴ 70
2
votes
3
replies
692
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
10 months ago R_Page • 0
2
votes
5
replies
1.4k
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
10 months ago j_denton • 0
0
votes
4
replies
842
views
Retrieve gene ontologies (GO) for genes and a species by REST API
GO ensembldb
11 months ago Rockbar • 0
0
votes
10
replies
1.1k
views
ensembldb::getGenomeTwoBitFile() not working for many species
AnnotationHubSoftware ensembldb
updated 12 months ago by 67k • written 12 months ago by • 0
7
votes
6
replies
5.5k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 11 months ago by 700 • written 2.1 years ago by ▴ 20
3
votes
1
reply
2.7k
views
Mouse to Human Genes using bioconductor
ensembldb
updated 14 months ago by 67k • written 14 months ago by ▴ 10
0
votes
1
reply
668
views
Relationship between gene_id and transcript_id genomic coordinates
Rsubread ensembldb
updated 14 months ago by 67k • written 14 months ago by • 0
0
votes
1
reply
2.1k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 14 months ago by 42k • written 14 months ago by ▴ 30
0
votes
2
replies
1.4k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 18 months ago by ★ 2.1k • written 18 months ago by • 0
0
votes
0
replies
847
views
BiomaRt - Problem to access homolog lists
biomaRt ensembldb
19 months ago ginie.dub • 0
1
vote
0
replies
814
views
News: Ensembl 109 has been released
ensembldb
19 months ago Aleena ▴ 30
0
votes
3
replies
1.2k
views
Uniprot IDs and NCBI taxonomy IDs to coding sequences
ensembldb biodbUniprot
updated 20 months ago by 67k • written 20 months ago by • 0
2
votes
4
replies
911
views
Successor of genesBy Defunct Function
ensembldb
updated 20 months ago by 16k • written 20 months ago by ★ 1.5k
5
votes
3
replies
1.9k
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt ensembldb ensembl
23 months ago • updated 20 months ago jamie.gearing ▴ 60
1
vote
3
replies
1.1k
views
Convert Chromosome postion to gene symbol
biomaRt ensembldb
21 months ago mbansal • 0
2
votes
3
replies
2.1k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 20 months ago by • 0 • written 22 months ago by ▴ 10
1
vote
2
replies
913
views
News: Ensembl 108 has been released!
biomaRt ensembldb ensembl
written 23 months ago by ▴ 10
0
votes
5
replies
2.4k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 23 months ago by ★ 4.1k • written 23 months ago by ▴ 30
0
votes
4
replies
1.3k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
2.0 years ago • updated 24 months ago dario.beraldi • 0
2
votes
3
replies
2.7k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 2.0 years ago by ▴ 130 • written 2.0 years ago by ▴ 10
0
votes
1
reply
836
views
getBM Error with certain attribute combinations
biomaRt ensembldb
updated 2.1 years ago by ★ 4.4k • written 2.1 years ago by • 0
0
votes
3
replies
1.6k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.2 years ago • updated 2.1 years ago sandmann.t ▴ 70
1
vote
0
replies
973
views
News: Ensembl 107 has been released
ensembldb
2.2 years ago Aleena ▴ 30
0
votes
1
reply
1.2k
views
bioMart Sscrofa_gene_ensembl getBM() paralogues ERROR
biomaRt ensembldb paralogues
updated 2.2 years ago by ★ 1.6k • written 2.2 years ago by • 0
0
votes
3
replies
3.5k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation EnsDb.Hsapiens.v86 Bioconductor package ensembldb
2.2 years ago elmfinds • 0
2
votes
0
replies
820
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
2.5 years ago Benjamin ▴ 30
2
votes
2
replies
1.3k
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
2.6 years ago Matthew Thornton ▴ 380
0
votes
2
replies
3.1k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 2.6 years ago by • 0
9
votes
14
replies
7.1k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 10 weeks ago by 4.0k • written 2.7 years ago by ▴ 40
0
votes
2
replies
1.7k
views
Can't convert dog ensembl IDs into gene names
biomaRt ensembldb
updated 2.8 years ago by ★ 4.4k • written 2.8 years ago by • 0
0
votes
3
replies
1.6k
views
Error: package or namespace load failed for 'EnsDb.Mmusculus.v79'
EnsDb.Mmusculus.v79 EnsDb.Mmusculus.v75 ensembldb
updated 2.8 years ago by ★ 2.1k • written 2.8 years ago by • 0
1
vote
0
replies
920
views
News: Ensembl 105 has just been released!
ensembl biomaRt ensembldb
2.8 years ago mchakiachvili ▴ 20
0
votes
1
reply
1.2k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.9 years ago by • 0
10
votes
18
replies
3.3k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 2.9 years ago by 16k • written 2.9 years ago by 42k
0
votes
3
replies
1.3k
views
Problem select / ensembl package
ensembldb
2.9 years ago yinnahm • 0
2
votes
3
replies
2.0k
views
biomart query in R is not matching ensembl website - missing results
ensembldb biomaRt
updated 3.0 years ago by ★ 6.5k • written 3.0 years ago by • 0
0
votes
3
replies
1.2k
views
Error using old ensembldb annotations with R 4.0 +
anno EnsDb.Hsapiens.v79 ensDb.HSapiens.v92 AnnotationDbi ensembldb
3.1 years ago rbenel ▴ 40
1
vote
9
replies
2.3k
views
How to filter EnsDb into another EnsDb object instead of GRange?
ens ensembldb EnsDb.Hsapiens.v86 EnsDb.Rnorvegicus.v75
3.3 years ago Ahdee ▴ 50
1
vote
0
replies
1.2k
views
News: Ensembl 104 has just been released!
ensembldb biomaRt
3.4 years ago mchakiachvili ▴ 20
2
votes
1
reply
1.9k
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 3.5 years ago by ★ 2.1k • written 3.5 years ago by ▴ 510
1
vote
2
replies
1.3k
views
Unable to use ensembldb's "ensDbFromGff()" function on .gff file from NCBI
ensembldb RNASeq
3.5 years ago Torkel • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: Poor dispersion fit in DESeq2 by Michael Love 42k
The fit (red line) doesn't matter because you have so many samples. Note there is almost no shrinkage. Besides that you may be intereste…
Answer: DESeq2 analysis on 2 plant lines infected with virus, with 2 time points (days p by Michael Love 42k
I'd recommend actually meeting with a local statistician to work out the analysis plan, or someone familiar with linear models in R. I h…
Answer: DESeq2 design and contrasts with 2 drug-treated and one control group by Michael Love 42k
> Now I am interested in comparing the DE genes between the resistant and acute groups, but I am unsure how to account for DMSO in that com…
Answer: Spectra and PSMatch- trouble in reducePSMs, joinSpectraData, or countIdentificat by Laurent Gatto 1.6k
Tthis happens because the sequence spectraVariable is expected to be an atomic vector or a List with elements of length 1, but it's not - s…
Comment: How should I run ssGSEA Hallmark Enrichment Analysis? by Ginny • 0
I think the other side of this question is that the non protein coding genes would be in the "background", they would influence the ranking…
Votes
Answer: ISO a solution to rank-order introns by transcript
Answer: ISO a solution to rank-order introns by transcript
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're c
Answer: addPatternDensity in 'qsea' takes too much time
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