Showing : Ensembl • reset
15
votes
13
replies
778
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 6 months ago by ▴ 10 • written 6 months ago by ▴ 20
14
votes
7
replies
7.5k
views
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
deseq2 ensembl
updated 4.3 years ago by 59k • written 4.3 years ago by ▴ 140
13
votes
8
replies
13k
views
how to use biomaRt with ensembl build 37
biomaRt ensembl GRCh37
updated 7.6 years ago by ▴ 790 • written 7.6 years ago by ▴ 90
10
votes
8
replies
1.3k
views
Best alternative annotation package to BiomaRt
R biomaRt Ensembl rnaseq
2.9 years ago m93 ▴ 10
9
votes
1
reply
1.7k
views
News: Ensembl release 80 is out!
biomart Ensembl zebrafish Rat 1000 genomes phase 3 News
updated 7.0 years ago by ▴ 380 • written 7.0 years ago by ▴ 790
8
votes
9
replies
747
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 3 months ago by 15k • written 4 months ago by ▴ 30
8
votes
8
replies
1.7k
views
biomaRt: drerio_gene_ensembl dataset missing
biomart ensembl ripseeker
updated 4.5 years ago by ★ 5.5k • written 4.5 years ago by ▴ 480
6
votes
5
replies
2.6k
views
biomaRt Ensembl gene ID to multiple HGNC symbol
ensembl symbol hgnc biomart
updated 3.0 years ago by 59k • written 3.0 years ago by ▴ 80
6
votes
5
replies
7.1k
views
biomaRt: no access to Ensembl_75 (GRCh37.p13)
biomarRt ensembl
updated 7.5 years ago by • 0 • written 7.6 years ago by • 0
6
votes
11
replies
1.7k
views
ensembldb from M.musculus NCBI37 v67 gtf
ensembldb NCBI37 v67 ensembl
4.3 years ago floriandeckert ▴ 30
5
votes
12
replies
1.3k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 9 days ago by ★ 1.9k • written 3.5 years ago by ★ 3.2k
5
votes
5
replies
1.3k
views
News: Ensembl 88 is out!
ensembl ensembl mart biomart e!88 News
5.2 years ago Thomas Maurel ▴ 790
5
votes
2
replies
1.8k
views
News: Ensembl release 81 is out!
human mouse GRCh38 biomart Ensembl News
updated 6.9 years ago by ▴ 380 • written 6.9 years ago by ▴ 790
4
votes
5
replies
769
views
Getting CDSCHROM values from ENSEMBL/SYMBOL keys using mapIds from TxDb.Hsapiens.UCSC.hg19.knownGene
ensembl cdschrom org.Hs.eg.db AnnotationDbi SingleCellExperiment
updated 3.1 years ago by 59k • written 3.1 years ago by ▴ 10
4
votes
9
replies
2.0k
views
News: Ensembl release 84 is out!
ensembl mart release84 biomart ensembl release News
updated 6.1 years ago by ▴ 20 • written 6.2 years ago by ▴ 790
4
votes
17
replies
1.0k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 21 months ago by 3.5k • written 21 months ago by ▴ 10
4
votes
4
replies
556
views
biomaRt getSequence fails with genomic coordinates
biomart getSequence genomic coordinates ENSEMBL bug report
updated 2.3 years ago by ★ 5.5k • written 2.3 years ago by ▴ 10
4
votes
5
replies
1.2k
views
ChIPpeakAnno getAnnotation request fail
chippeakanno biomart ensembl
6.4 years ago igor ▴ 40
4
votes
11
replies
654
views
Dealing with duplicated genes in camera gene set testing
limma camera gene set testing ensembl
updated 2.4 years ago by ★ 2.9k • written 2.4 years ago by ▴ 10
4
votes
8
replies
6.7k
views
Ensembl site unresponsive
ensembl biomart
updated 13 months ago by • 0 • written 19 months ago by ▴ 40
4
votes
1
reply
4.7k
views
Finding orthologous human/mouse ENSEMBL IDs
human mouse ensembl annotationdbi homologue
5.0 years ago • updated 4.9 years ago Keith Hughitt ▴ 150
3
votes
6
replies
1.2k
views
biomaRt: Ensembl -> Entrez conversion error?
biomart entrez gene identifiers ensembl conversion
updated 3.5 years ago by ★ 5.5k • written 3.5 years ago by ▴ 10
3
votes
6
replies
1.2k
views
Problem with annotating ENSEMBLE IDs to GENE SYMBOL with AnnotationDBI mapIDs
annotation ensembl annotationdbi
3.9 years ago vd4mmind • 0
3
votes
14
replies
2.7k
views
biomaRt - Error in getBM: The query to the BioMart webservice returned an invalid result
biomart error ensembl bioconductor ensembl mart
5.0 years ago daniel.carbajo • 0
3
votes
2
replies
540
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart geo software error ensembl
updated 3.0 years ago by ★ 5.5k • written 3.0 years ago by ▴ 10
2
votes
0
replies
416
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 3.0 years ago by • 0 • written 3.1 years ago by 3.1k
2
votes
3
replies
8.9k
views
BiomaRt: protein coding transcript identification
ensembl protein coding biomart
updated 7.6 years ago by ▴ 790 • written 7.6 years ago by ▴ 120
2
votes
2
replies
838
views
goseq package: Is the package in sync with the most current Ensembl release?
goseq ensembl
updated 6.1 years ago by ★ 1.9k • written 6.1 years ago by ▴ 10
2
votes
1
reply
847
views
Why does biomaRt query show inconsistent behavior with ensembl versions from March and May
biomart ensembl
6.9 years ago jmeisig ▴ 20
2
votes
3
replies
618
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
3.5 years ago rtwest • 0
2
votes
1
reply
841
views
GoSeq: use ENSEMBLTRANS as input
goseq ensembl
updated 7.0 years ago by ▴ 310 • written 7.0 years ago by ▴ 10
2
votes
1
reply
829
views
News: Ensembl 91 is out!
ensembl biomart release ensembl91 News
4.5 years ago amonida ▴ 20
2
votes
1
reply
1.0k
views
Ensemble and Entrez disconnected?
ensembl entrez biomart org.hs.eg.db
updated 3.5 years ago by 59k • written 3.5 years ago by • 0
2
votes
3
replies
215
views
Ensembl non responsive
ensembl R
6 weeks ago ksci ▴ 10
2
votes
2
replies
1.3k
views
BioMart missing IDs
biomart ensembl entrez gene identifiers
updated 3.8 years ago by 59k • written 3.8 years ago by ▴ 20
2
votes
3
replies
243
views
biomaRt server error, and mirrors do not help
ensembl biomaRt R
24 days ago • updated 16 days ago kieran.short ▴ 10
2
votes
1
reply
127
views
Can Rsubread output use Ensembl gene IDs
Ensembl Rsubread
updated 8 weeks ago by 45k • written 8 weeks ago by ▴ 10
2
votes
2
replies
517
views
Ensembl sheep dataset in biomaRt
ensembl biomart oaries
updated 3.8 years ago by ★ 5.5k • written 3.8 years ago by • 0
2
votes
0
replies
96
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
6 weeks ago Benjamin ▴ 20
2
votes
12
replies
1.9k
views
biomaRt does not return entrezgene id
bioconductor biomart entrez gene identifiers ensembl ensembl mart
updated 5.1 years ago by ▴ 790 • written 5.1 years ago by • 0
2
votes
11
replies
3.1k
views
biomaRT connexion problem make failed my unit tests
biomaRt Peer's Certificate Ensembl
updated 16 months ago by ★ 5.5k • written 20 months ago by • 0
2
votes
6
replies
1.2k
views
biomaRt Ensembl ID query returns NA in 'ensembl_gene_id', 'ensembl_transcript_id', etc.
biomart ensembl annotation
updated 4.9 years ago by ★ 5.5k • written 4.9 years ago by ▴ 30
2
votes
4
replies
1.1k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl macaque dbsnp customprodb
updated 6.9 years ago by ▴ 50 • written 6.9 years ago by • 0
2
votes
2
replies
886
views
BiomaRt returns 0 obs
biomart getbm ensembl
updated 3.8 years ago by 59k • written 3.8 years ago by • 0
2
votes
3
replies
757
views
Problem for finding "Locus Link ID" from Annotation file
wgcna package TCGA LocusLinkID genecode ensembl
updated 3.6 years ago by 59k • written 3.6 years ago by ▴ 10
1
vote
5
replies
1.8k
views
Ensembl bacteria not accessible from biomaRt
biomart ensembl
updated 6.0 years ago by 25k • written 6.0 years ago by ▴ 20
1
vote
2
replies
788
views
get_gene_transcript_exon_tables.pl extremely slow
ensembl ensembldb
updated 4.6 years ago by ★ 1.9k • written 4.6 years ago by ▴ 230
1
vote
0
replies
948
views
News: ensembl 90 ensembldb EnsDb databases have been added to AnnotationHub
ensemblb ensembl AnnotationHub annotation News
4.7 years ago Johannes Rainer ★ 1.9k
1
vote
2
replies
2.5k
views
Converting annotation from UCSC to Ensembl
ensembl ucsc annotation
updated 6.5 years ago by 59k • written 6.5 years ago by ▴ 100
1
vote
1
reply
888
views
News: Ensembl 90 has been released
ensembl biomart ensembl90 release News
4.8 years ago Thomas Maurel ▴ 790
50 results • Page 1 of 1
Recent ...
Replies
Comment: Error in h(simpleError(msg, call)) : when calling makeOrgPackagefromNCBI() by Lan Anh • 0
Hello, Sorry for the late answer, I called several packages after my error and I do not know how it worked after that. Thank you for the h…
Comment: LogFC values in edgeR - w/wo intercept by JK Kim • 0
Thanks, Dr. Smyth!
Comment: LogFC values in edgeR - w/wo intercept by JK Kim • 0
Oops. I just corrected the URL. Thank you Dr. Smyth.
Comment: Fail to run RupRadar by Qingwei • 0
Dear Sergi, Yeah, it works. ```r dm <- analyzeDuprates(bamDuprm,gtf,stranded,paired,threads, GTF.featureType="cDNA_match", GTF.attrType="ID…
Comment: LogFC values in edgeR - w/wo intercept by Gordon Smyth 45k
The link you've entered for "A guide to creating design matrices for gene expression experiments" doesn't work. Could you please correct th…
Votes
Comment: LogFC values in edgeR - w/wo intercept
Answer: LogFC values in edgeR - w/wo intercept
Answer: LogFC values in edgeR - w/wo intercept
Answer: broken chain import in liftOver
Answer: toGRanges help!
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