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ensembldb
•
reset
6
votes
11
replies
3.2k
views
ensembldb from M.musculus NCBI37 v67 gtf
ensembldb
NCBI37
v67
ensembl
6.2 years ago
floriandeckert
▴ 30
7
votes
36
replies
5.5k
views
Ensembl plants at annotationHub?
ensembl
ensembldb
plant
arabidopsis thaliana
annotationhub
updated 22 days ago by
Shiva
• 0 • written 5.4 years ago by
Guido Hooiveld
★ 3.9k
5
votes
6
replies
3.3k
views
How to build and map to a "pre-mRNA" reference transcriptome for single nucleus RNA-seq data?
tximeta
ensembldb
single-cell
snRNA-seq
tximport
updated 4.5 years ago by
Robert Castelo
★ 3.3k • written 4.5 years ago by
Stephanie Hicks
▴ 80
5
votes
3
replies
1.7k
views
Is it possible to get Ensembl gene descriptions with ensembldb?
ensembldb
updated 6.9 years ago by
Johannes Rainer
★ 2.0k • written 6.9 years ago by
Julien Roux
▴ 90
9
votes
11
replies
5.7k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl
Rstudio
ensembldb
AnnotationHub
ensdb
updated 6 weeks ago by
shepherl
3.8k • written 2.3 years ago by
jon.klonowski
▴ 40
3
votes
4
replies
13k
views
converting ensembl transcript ID to ensemble gene: problem & missing values
biomart
error
ensembldb
6.2 years ago • updated 6.1 years ago
Yuqia
• 0
0
votes
3
replies
2.3k
views
incorrect biomaRt output order of gene list
biomart
ensembldb
error
6.1 years ago
Yuqia
• 0
5
votes
3
replies
1.4k
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt
ensembldb
ensembl
18 months ago • updated 15 months ago
jamie.gearing
▴ 60
0
votes
3
replies
1.1k
views
Problem select / ensembl package
ensembldb
2.5 years ago
yinnahm
• 0
10
votes
18
replies
2.8k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 2.4 years ago by
Hervé Pagès
16k • written 2.5 years ago by
Michael Love
41k
7
votes
6
replies
4.1k
views
Conversion of UniProt to Ensembl
biomaRt
ensembldb
UniProt.ws
updated 6 months ago by
Marcel Ramos
690 • written 20 months ago by
Recep
▴ 20
2
votes
2
replies
1.3k
views
ensembldb and pseudogenes mapping to the same Ensembl ID
ensembldb
6.3 years ago
meeta.mistry
▴ 30
0
votes
3
replies
2.9k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation
EnsDb.Hsapiens.v86
Bioconductor
package
ensembldb
22 months ago
elmfinds
• 0
2
votes
9
replies
2.4k
views
ensembldb salmon deseq2 txt2import right tool?
ensembldb
deseq2
6.9 years ago
aaron.dickey
• 0
2
votes
3
replies
297
views
seqlevelsStyle() not working
ensembldb
genomei
GenomeInfoDb
11 weeks ago
Kai Hu
▴ 70
3
votes
8
replies
4.3k
views
EnsemblDb: how to retrieve gene name / description?
EnsDb.Mmusculus.v79
ensembldb
annotation
updated 6.7 years ago by
Johannes Rainer
★ 2.0k • written 6.7 years ago by
Guido Hooiveld
★ 3.9k
4
votes
9
replies
2.1k
views
keys() fails on EnsDb.Hsapiens.v75 on Bioc 3.5
ensdb.hsapiens.v75
ensembldb
keys
updated 7.0 years ago by
Johannes Rainer
★ 2.0k • written 7.0 years ago by
enricoferrero
▴ 660
3
votes
2
replies
1.6k
views
tximport with versioned identifiers
tximport
ensembldb
6.5 years ago
Ed Siefker
▴ 230
1
vote
9
replies
1.9k
views
How to filter EnsDb into another EnsDb object instead of GRange?
ens
ensembldb
EnsDb.Hsapiens.v86
EnsDb.Rnorvegicus.v75
2.9 years ago
Ahdee
▴ 50
2
votes
3
replies
1.7k
views
biomart query in R is not matching ensembl website - missing results
ensembldb
biomaRt
updated 2.5 years ago by
Mike Smith
★ 6.5k • written 2.5 years ago by
Alice
• 0
5
votes
6
replies
2.5k
views
Is mapId supposed to concatenate multiVals?
annotationdbi
ensembldb
updated 6.9 years ago by
Johannes Rainer
★ 2.0k • written 7.0 years ago by
Steve Lianoglou
★ 13k
0
votes
1
reply
217
views
Canonical transcripts Mus musculus
TxDb.Mmusculus.UCSC.mm9.knownGene
ensembldb
GenomicFeatures
Mus_musculus
updated 10 weeks ago by
James W. MacDonald
65k • written 10 weeks ago by
ramonmassoni
▴ 10
6
votes
10
replies
2.2k
views
ensembldb: ensDbFromGtf error with ensembl version 74
ensembldb
updated 7.9 years ago by
Johannes Rainer
★ 2.0k • written 7.9 years ago by
stianlagstad
▴ 90
0
votes
2
replies
1.1k
views
ENSEMBL_MART_FUNCGEN not accessible through biomaRt?
biomart
regulatory
ensemble mart
ensembldb
updated 7.9 years ago by
Thomas Maurel
▴ 800 • written 7.9 years ago by
Sigve Nakken
▴ 50
0
votes
2
replies
1.7k
views
Generating database with non model species to be use by ReportingTools
reportingtools
annotationdbi
annotationhub
ensembldb
updated 7.9 years ago by
Johannes Rainer
★ 2.0k • written 7.9 years ago by
cagenet34
▴ 20
0
votes
3
replies
1.8k
views
errors with makeTxDbFromBiomart
biomart
genomicfeatures
maketxdbfrombiomart
ensembldb
ensDbFromGtf
updated 6.7 years ago by
Johannes Rainer
★ 2.0k • written 6.8 years ago by
Marie
• 0
3
votes
7
replies
3.1k
views
ensDbFromGtf error from gtf file downloaded from GENCODE.
ensembldb
ensdbfromgtf
updated 6.6 years ago by
Johannes Rainer
★ 2.0k • written 6.6 years ago by
Mthabisi Moyo
▴ 40
1
vote
2
replies
1.2k
views
get_gene_transcript_exon_tables.pl extremely slow
ensembl
ensembldb
updated 6.5 years ago by
Johannes Rainer
★ 2.0k • written 6.5 years ago by
Ed Siefker
▴ 230
0
votes
5
replies
2.0k
views
error when using ensembldb with a MySQL server
ensembldb
rmysql
updated 6.3 years ago by
James W. MacDonald
65k • written 6.3 years ago by
Didi
▴ 10
1
vote
3
replies
1.4k
views
how to get intron with ensembldb. package?
granges
ensembldb
GenomicFeatures
6.3 years ago
alessandro.pastore
▴ 20
5
votes
9
replies
3.5k
views
Correct version of EnsDb.Hsapiens for ensembl transcriptome
ensembldb
ensembl release
rnaseq
salmon
tximport
6.2 years ago
emmak
▴ 20
6
votes
14
replies
2.9k
views
ensembldb error/bug: Can't locate Bio/EnsEMBL/ApiVersion.pm in @INC | fetchTablesFromEnsembl
ensembldb
updated 6.0 years ago by
Johannes Rainer
★ 2.0k • written 6.0 years ago by
Ramiro Magno
▴ 100
0
votes
3
replies
4.3k
views
Create Ensembl transcript to gene IDs table with R ensembldb package for tximport
ensembldb
tximport
salmon
updated 5.9 years ago by
Johannes Rainer
★ 2.0k • written 5.9 years ago by
user31888
▴ 30
1
vote
2
replies
2.3k
views
tximport using Ensembdb to create Tx2gene dataframe with bovine transcripts ?
tximport
ensembldb
bos taurus
tx2gene
updated 5.7 years ago by
James W. MacDonald
65k • written 5.7 years ago by
gilles.charpigny
• 0
0
votes
1
reply
979
views
Pick coding vs non-coding from Ensembl data set
R
ensembl
ensembldb
noncoding rna
protein coding
updated 5.4 years ago by
Johannes Rainer
★ 2.0k • written 5.4 years ago by
jdmentze
• 0
4
votes
4
replies
2.6k
views
Retrieve canonical transcript for each gene via ensembldb R package
annotation
ensembldb
updated 21 months ago by
jon.klonowski
▴ 40 • written 5.3 years ago by
simon.boutry
• 0
2
votes
12
replies
1.6k
views
BioFileCache Problem and not linking to ensembldb problem in TxiMeta
Tximeta
BioFileCache
Ensembldb
updated 4.2 years ago by
Martin Morgan
25k • written 4.2 years ago by
kavator
▴ 30
2
votes
1
reply
849
views
protein_domain_source from ensembldb and mapping with PFAM.db
ensembldb
pfam.db
4.0 years ago
bruce.moran
▴ 30
1
vote
1
reply
770
views
Is transcript color accessible through ensembldb? (gold = in both HAVANA+ENSEMBL)
ensembldb
updated 3.8 years ago by
Johannes Rainer
★ 2.0k • written 3.8 years ago by
Aditya
▴ 160
1
vote
1
reply
1.3k
views
topGO question
Ensembl
ensembldb
updated 3.4 years ago by
James W. MacDonald
65k • written 3.4 years ago by
H. Stotz
• 0
2
votes
2
replies
2.6k
views
mapping gene type or biotype to ENSEMBL ID
ensembldb
biomaRt
org.Hs.eg.db
Annotation
updated 3.3 years ago by
Johannes Rainer
★ 2.0k • written 3.3 years ago by
Anubhav
• 0
3
votes
2
replies
2.5k
views
Mapping Ensemble IDs with version numbers using ensembl annotation packages
AnnotationDbi
ensembldb
3.2 years ago
Ezgi
▴ 60
3
votes
1
reply
1.3k
views
Mouse to Human Genes using bioconductor
ensembldb
updated 8 months ago by
James W. MacDonald
65k • written 8 months ago by
Max
▴ 10
0
votes
2
replies
1.4k
views
Can't convert dog ensembl IDs into gene names
biomaRt
ensembldb
updated 2.3 years ago by
ATpoint
★ 4.0k • written 2.3 years ago by
4214811
• 0
1
vote
2
replies
1.1k
views
Unable to use ensembldb's "ensDbFromGff()" function on .gff file from NCBI
ensembldb
RNASeq
3.1 years ago
Torkel
• 0
0
votes
1
reply
1.0k
views
bioMart Sscrofa_gene_ensembl getBM() paralogues ERROR
biomaRt
ensembldb
paralogues
updated 22 months ago by
Malcolm Cook
★ 1.6k • written 22 months ago by
Zeroual
• 0
2
votes
1
reply
1.4k
views
Retrieve gene description with ensembldb
biomaRt
ensembldb
AnnotationData
updated 3.0 years ago by
Johannes Rainer
★ 2.0k • written 3.0 years ago by
António Miguel de Jesus Domingues
▴ 490
0
votes
4
replies
1.1k
views
GO data for fgsea: should ensembl data be augmented to contain parent terms?
biomaRt
GO
ensembldb
fgsea
19 months ago
dario.beraldi
• 0
2
votes
2
replies
1.1k
views
ensembldb to make the EnsDb for Human Version 105 using 'fetchTablesFromEnsembl' I'm on day two, can it be sped up?
ensembldb
2.2 years ago
Matthew Thornton
▴ 350
2
votes
3
replies
487
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio
cDNA
ensembldb
NCBI
4 months ago
R_Page
• 0
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