Showing : Ensembldb • reset
0
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0
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146
views
News: Ensembl 113 has been released
ensembl ensembldb mart biomaRt
5 weeks ago Ensembl_Jorge • 0
1
vote
3
replies
858
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 11 weeks ago by 67k • written 9 months ago by ▴ 10
0
votes
0
replies
273
views
Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
12 weeks ago Aleena ▴ 30
1
vote
1
reply
516
views
biomaRt getSequence(): Error in .lock2
ensembldb getSequence
updated 3 months ago by ★ 6.6k • written 3 months ago by ▴ 10
1
vote
0
replies
372
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
6 months ago Aleena ▴ 30
2
votes
5
replies
595
views
get BM error
ensembldb
updated 7 months ago by 67k • written 7 months ago by • 0
10
votes
41
replies
7.3k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 6 months ago by • 0 • written 6.0 years ago by ★ 4.1k
0
votes
1
reply
448
views
Convert transcriptomic bam to genomic bam?
ensembldb transcriptome genome coordinateconversion
updated 7 months ago by 43k • written 8 months ago by ▴ 10
0
votes
1
reply
549
views
Canonical transcripts Mus musculus
TxDb.Mmusculus.UCSC.mm9.knownGene ensembldb GenomicFeatures Mus_musculus
updated 9 months ago by 67k • written 9 months ago by ▴ 10
2
votes
4
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935
views
seqlevelsStyle() not working
ensembldb genomei GenomeInfoDb
written 9 months ago by ▴ 70
2
votes
3
replies
740
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
12 months ago • updated 11 months ago R_Page • 0
4
votes
6
replies
1.7k
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
updated 8 weeks ago by • 0 • written 12 months ago by • 0
0
votes
4
replies
936
views
Retrieve gene ontologies (GO) for genes and a species by REST API
GO ensembldb
13 months ago Rockbar • 0
0
votes
10
replies
1.2k
views
ensembldb::getGenomeTwoBitFile() not working for many species
AnnotationHubSoftware ensembldb
updated 14 months ago by 67k • written 14 months ago by • 0
7
votes
6
replies
6.0k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 13 months ago by 700 • written 2.3 years ago by ▴ 20
3
votes
1
reply
3.3k
views
Mouse to Human Genes using bioconductor
ensembldb
updated 16 months ago by 67k • written 16 months ago by ▴ 10
0
votes
1
reply
727
views
Relationship between gene_id and transcript_id genomic coordinates
Rsubread ensembldb
updated 16 months ago by 67k • written 16 months ago by • 0
0
votes
1
reply
2.2k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 16 months ago by 43k • written 16 months ago by ▴ 30
0
votes
2
replies
1.5k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 20 months ago by ★ 2.1k • written 20 months ago by • 0
0
votes
0
replies
906
views
BiomaRt - Problem to access homolog lists
biomaRt ensembldb
21 months ago ginie.dub • 0
1
vote
0
replies
873
views
News: Ensembl 109 has been released
ensembldb
21 months ago Aleena ▴ 30
0
votes
3
replies
1.3k
views
Uniprot IDs and NCBI taxonomy IDs to coding sequences
ensembldb biodbUniprot
updated 22 months ago by 67k • written 22 months ago by • 0
2
votes
4
replies
968
views
Successor of genesBy Defunct Function
ensembldb
updated 22 months ago by 16k • written 22 months ago by ★ 1.5k
5
votes
3
replies
2.0k
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt ensembldb ensembl
2.1 years ago • updated 22 months ago jamie.gearing ▴ 60
1
vote
3
replies
1.2k
views
Convert Chromosome postion to gene symbol
biomaRt ensembldb
23 months ago mbansal • 0
2
votes
3
replies
2.3k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 22 months ago by • 0 • written 2.0 years ago by ▴ 10
1
vote
2
replies
968
views
News: Ensembl 108 has been released!
biomaRt ensembldb ensembl
written 2.1 years ago by ▴ 10
0
votes
5
replies
2.7k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 2.1 years ago by ★ 4.1k • written 2.1 years ago by ▴ 30
0
votes
4
replies
1.4k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt GO ensembldb fgsea
2.2 years ago dario.beraldi • 0
2
votes
3
replies
3.0k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 2.2 years ago by ▴ 140 • written 2.2 years ago by ▴ 10
0
votes
1
reply
872
views
getBM Error with certain attribute combinations
biomaRt ensembldb
updated 2.2 years ago by ★ 4.5k • written 2.2 years ago by • 0
0
votes
3
replies
1.8k
views
Differences in ENSEMBL => ENTREZID mapping coverage between org.Hs.eg.db and AnnotationHub resources
AnnotationHub org.Hs.eg.db ensembldb
2.3 years ago sandmann.t ▴ 70
1
vote
0
replies
1.0k
views
News: Ensembl 107 has been released
ensembldb
2.4 years ago Aleena ▴ 30
0
votes
1
reply
1.4k
views
bioMart Sscrofa_gene_ensembl getBM() paralogues ERROR
biomaRt ensembldb paralogues
updated 2.4 years ago by ★ 1.6k • written 2.4 years ago by • 0
0
votes
3
replies
3.7k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation EnsDb.Hsapiens.v86 Bioconductor package ensembldb
2.4 years ago elmfinds • 0
2
votes
0
replies
874
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
2.6 years ago Benjamin ▴ 30
2
votes
2
replies
1.4k
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
2.7 years ago Matthew Thornton ▴ 380
0
votes
2
replies
3.3k
views
How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 2.8 years ago by • 0
9
votes
14
replies
7.6k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 4 months ago by 4.1k • written 2.8 years ago by ▴ 40
0
votes
2
replies
1.8k
views
Can't convert dog ensembl IDs into gene names
biomaRt ensembldb
updated 2.9 years ago by ★ 4.5k • written 2.9 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 2.9 years ago by ★ 2.1k • written 2.9 years ago by • 0
1
vote
0
replies
961
views
News: Ensembl 105 has just been released!
ensembl biomaRt ensembldb
3.0 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 3.0 years ago by • 0
10
votes
18
replies
3.4k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 3.0 years ago by 16k • written 3.1 years ago by 43k
0
votes
3
replies
1.4k
views
Problem select / ensembl package
ensembldb
3.1 years ago yinnahm • 0
2
votes
3
replies
2.1k
views
biomart query in R is not matching ensembl website - missing results
ensembldb biomaRt
updated 3.1 years ago by ★ 6.6k • written 3.1 years ago by • 0
0
votes
3
replies
1.3k
views
Error using old ensembldb annotations with R 4.0 +
anno EnsDb.Hsapiens.v79 ensDb.HSapiens.v92 AnnotationDbi ensembldb
3.3 years ago rbenel ▴ 40
1
vote
9
replies
2.4k
views
How to filter EnsDb into another EnsDb object instead of GRange?
ens ensembldb EnsDb.Hsapiens.v86 EnsDb.Rnorvegicus.v75
3.5 years ago Ahdee ▴ 50
1
vote
0
replies
1.2k
views
News: Ensembl 104 has just been released!
ensembldb biomaRt
3.6 years ago mchakiachvili ▴ 20
2
votes
1
reply
2.1k
views
Retrieve gene description with ensembldb
biomaRt ensembldb AnnotationData
updated 3.6 years ago by ★ 2.1k • written 3.6 years ago by ▴ 510
50 results • Page 1 of 1
Recent ...
Replies
Answer: Epic v2 Annotation CpG_maf source? by James W. MacDonald 67k
Those all come from dbSNP by way of UCSC. [See here][1], particularly lines 114 and onward. Here is no MAF for a CpG. The MAF is for the…
Comment: Deseq2 res Function by James W. MacDonald 67k
In addition to Mike's comment, do note that if you are generating a heatmap based on the set of significant genes, the direction of your co…
Answer: Struggle with the replicates of epic array data by James W. MacDonald 67k
You shouldn't be using beta values for a linear model that assumes a unimodal, untruncated distribution (beta values are strictly on (0-1) …
Comment: Identifying potentially associated gene set to drug response using GSVA by Robert Castelo ★ 3.4k
So, if I understand correctly, you derived GSVA scores from gene sets corresponding somehow to drugs in your RNA-seq data. Since GSVA score…
Answer: Deseq2 res Function by Michael Love 43k
> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…
Votes
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
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