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ensembl
•
reset
5
votes
3
replies
296
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt
ensembldb
ensembl
3 months ago • updated 23 days ago
jamie.gearing
▴ 60
1
vote
2
replies
211
views
News:
Ensembl 108 has been released!
biomaRt
ensembldb
ensembl
written 3 months ago by
Louisse
▴ 10
0
votes
0
replies
220
views
biomaRt, Ensembl, retrieve "Phenotypes" information
Ensembl
biomaRt
5 months ago
Hector
• 0
5
votes
4
replies
2.4k
views
biomaRt server error, and mirrors do not help
ensembl
biomaRt
R
updated 11 weeks ago by
SE
• 0 • written 9 months ago by
kieran.short
▴ 30
2
votes
0
replies
314
views
News:
News:Ensembl 106 has just been released!
ensembl
biomaRt
ensembldb
9 months ago
Benjamin
▴ 20
2
votes
3
replies
630
views
Ensembl non responsive
ensembl
R
10 months ago
ksci
▴ 10
2
votes
1
reply
391
views
Can Rsubread output use Ensembl gene IDs
Ensembl
Rsubread
updated 10 months ago by
Gordon Smyth
47k • written 10 months ago by
agustin.gonvi
▴ 10
8
votes
9
replies
2.2k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl
Rstudio
ensembldb
AnnotationHub
ensdb
updated 12 months ago by
Hervé Pagès
16k • written 12 months ago by
jon.klonowski
▴ 40
0
votes
3
replies
553
views
biomaRT getBM() get stuck
biomaRt
getbm
ensembl
updated 12 months ago by
Mike Smith
★ 5.9k • written 12 months ago by
Ariel Simon
• 0
1
vote
0
replies
362
views
News:
Ensembl 105 has just been released!
ensembl
biomaRt
ensembldb
14 months ago
mchakiachvili
▴ 20
15
votes
13
replies
1.5k
views
celldex ensembl gene annotation issue
SingleR
celldex
HumanPrimaryCellAtlasData
ensembl
updated 14 months ago by
xiang
▴ 10 • written 15 months ago by
immuno.dh
▴ 20
0
votes
6
replies
841
views
Getting paralogus genes from biomart for mouse
biomart
biomaRt
Ensembl
updated 18 months ago by
Kevin Blighe
3.7k • written 18 months ago by
hemantcnaik
• 0
0
votes
2
replies
787
views
News:
Ensembl 103 has been released
biomaRt
ensembldb
Ensembl
ensemblVEP
Biomart
23 months ago • updated 21 months ago
mchakiachvili
▴ 20
1
vote
1
reply
643
views
topGO question
Ensembl
ensembldb
updated 2.2 years ago by
James W. MacDonald
62k • written 2.2 years ago by
H. Stotz
• 0
0
votes
0
replies
453
views
News:
Ensembl 102 has been released
Ensembl
biomaRt
BioMar
ensembldb
2.2 years ago
mchakiachvili
▴ 20
4
votes
8
replies
9.8k
views
Ensembl site unresponsive
ensembl
biomart
updated 21 months ago by
tommaso.gastaldi
• 0 • written 2.3 years ago by
lirongrossmann
▴ 40
2
votes
11
replies
3.8k
views
biomaRT connexion problem make failed my unit tests
biomaRt
Peer's Certificate
Ensembl
updated 2.0 years ago by
Mike Smith
★ 5.9k • written 2.4 years ago by
ilysR
• 0
4
votes
17
replies
1.4k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt
annotation
Ensembl
annotationHub
updated 2.4 years ago by
Kevin Blighe
3.7k • written 2.4 years ago by
Didi
▴ 10
0
votes
1
reply
580
views
News:
Ensembl 101 hase been released
Ensembl
BioMart
News
2.5 years ago
mchakiachvili
▴ 20
1
vote
3
replies
1.2k
views
Convert mouse gene ids to hamster gene ids
biomart
R
ensembl
updated 22 months ago by
Kevin Blighe
3.7k • written 2.6 years ago by
rykerklie7
• 0
1
vote
0
replies
586
views
News:
ensembldb EnsDb databases for Ensembl release 100 added to AnnotationHub
ensembl
annotation
ensembldb
News
2.7 years ago
Johannes Rainer
★ 2.0k
1
vote
0
replies
386
views
News:
Ensembl 100 has been released
biomart
ensembl
e100
mart
news
News
2.8 years ago
Thomas Maurel
▴ 790
0
votes
4
replies
539
views
Having a hard time creating a Txi object from an existing Salmon output file to convert transcript file to gene id TPM
Salmon
tximport
tximportdata
ensembl
updated 2.8 years ago by
Michael Love
39k • written 2.8 years ago by
slouis
• 0
1
vote
2
replies
1.0k
views
getBM biomart ensembl Error report
biomaRt
ensembl
updated 2.8 years ago by
Mike Smith
★ 5.9k • written 2.8 years ago by
nina.hahn
• 0
0
votes
1
reply
973
views
ChIPSeeker with Ensembl IDs
chipseeker
Ensembl
EnsDb.Mmusculus.v79
ensembldb
2.8 years ago
Assa Yeroslaviz
★ 1.5k
0
votes
2
replies
815
views
Error in martCheck(mart, c("ensembl", "ENSEMBL_MART_ENSEMBL")) : No dataset selected, please select a dataset first.
biomart
mart
ensembl
updated 2.8 years ago by
James W. MacDonald
62k • written 2.8 years ago by
didemdkn
• 0
0
votes
0
replies
296
views
News:
Changes to BioMart in Ensembl release 100 and Ensembl Genomes release 47
biomaRt
Ensembl
News
2.9 years ago
Astrid_Ensembl
• 0
4
votes
4
replies
849
views
biomaRt getSequence fails with genomic coordinates
biomart
getSequence
genomic coordinates
ENSEMBL
bug report
updated 3.0 years ago by
Mike Smith
★ 5.9k • written 3.0 years ago by
Ni-Ar
▴ 10
0
votes
1
reply
284
views
Question regarding retrieving miRNA sequences from ENSEMBLE
ensembl
updated 3.0 years ago by
Michael Love
39k • written 3.0 years ago by
mohsamir2016
• 0
0
votes
0
replies
419
views
News:
Ensembl 99 has been released and renaming of species
biomart
ensembl
e99
mart
news
News
3.1 years ago
Thomas Maurel
▴ 790
4
votes
11
replies
933
views
Dealing with duplicated genes in camera gene set testing
limma
camera
gene set testing
ensembl
updated 3.1 years ago by
Robert Castelo
★ 3.0k • written 3.1 years ago by
Jeremy Beales
▴ 10
1
vote
3
replies
1.6k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub
Ensembl
Mouse
AnnotationHub Ensembl
3.1 years ago
dmgatti
▴ 10
0
votes
14
replies
814
views
Error while opening Mart with biomaRt package
software error
ensembl
biomart
3.2 years ago
loicborcard01
• 0
0
votes
6
replies
466
views
Anyone else having trouble with biomaRt (Oct 10, 2019)
ensembl
biomaRt
updated 3.3 years ago by
Mike Smith
★ 5.9k • written 3.3 years ago by
swbarnes2
★ 1.2k
0
votes
7
replies
1.4k
views
BioMart does not find mouse homologs of human genes
biomart
homolog
ortholog
gene conversion
ensembl
updated 3.3 years ago by
James W. MacDonald
62k • written 3.3 years ago by
atakanekiz
▴ 30
0
votes
0
replies
516
views
News:
Ensembl 98 has been released and renaming of species
biomart
ensembl
e98
mart
News
3.4 years ago
Thomas Maurel
▴ 790
0
votes
1
reply
382
views
Eliminate redundancy in biomaRt (2.38.0) query
biomaRt
Ensembl
updated 3.5 years ago by
Mike Smith
★ 5.9k • written 3.5 years ago by
olibee1315
• 0
0
votes
3
replies
712
views
external_gene_id attribute removed from new biomaRt version
biomaRt
Ensembl
Ensemblplants
3.6 years ago
Didi
▴ 10
1
vote
0
replies
529
views
News:
ensembldb EnsDb databases for Ensembl release 97 added to AnnotationHub
annotation
ensembldb
Ensembl
News
3.6 years ago
Johannes Rainer
★ 2.0k
1
vote
0
replies
434
views
News:
Ensembl 97 has been released
biomart
ensembl
e97
News
3.6 years ago
James Allen
▴ 10
10
votes
8
replies
1.7k
views
Best alternative annotation package to BiomaRt
R
biomaRt
Ensembl
rnaseq
3.6 years ago
m93
▴ 10
0
votes
1
reply
685
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string
biomart
ensembl
R
Bioconductor
3.6 years ago
lbuo
• 0
0
votes
4
replies
890
views
Error message: "Request to BioMart web service failed."
BiocManager
biomaRt
listMarts()
ensembl
Biomart
updated 3.6 years ago by
Mike Smith
★ 5.9k • written 3.6 years ago by
ktd2918
• 0
3
votes
2
replies
703
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart
geo
software error
ensembl
updated 3.7 years ago by
Mike Smith
★ 5.9k • written 3.7 years ago by
wes
▴ 10
1
vote
1
reply
526
views
Gene biotype for a given symbol
ensembl
updated 3.7 years ago by
Johannes Rainer
★ 2.0k • written 3.7 years ago by
adai
• 0
1
vote
3
replies
1.1k
views
Scan error using biomart getBM with version option and host set
biomart
ensembl
getbm
3.7 years ago
Marc Saric
▴ 70
2
votes
0
replies
540
views
News:
ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
updated 3.7 years ago by
nguyenlieuduoc
• 0 • written 3.8 years ago by
shepherl
3.4k
6
votes
5
replies
3.5k
views
biomaRt Ensembl gene ID to multiple HGNC symbol
ensembl
symbol
hgnc
biomart
updated 3.7 years ago by
James W. MacDonald
62k • written 3.7 years ago by
foehn
▴ 80
0
votes
0
replies
449
views
News:
Ensembl 96 has been released
ensembl
biomart
biomaRt
e96
news
News
3.8 years ago
amonida
▴ 20
4
votes
5
replies
937
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 3.8 years ago by
James W. MacDonald
62k • written 3.8 years ago by
kushshah
▴ 10
50 results • Page
1 of 1
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I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…
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