Showing : ensembl • reset
0
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3
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127
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biomaRT getBM() get stuck
biomaRt getbm ensembl
updated 11 days ago by ★ 5.3k • written 12 days ago by • 0
1
vote
0
replies
65
views
News: Ensembl 105 has just been released!
ensembl biomaRt ensembldb
6 weeks ago mchakiachvili ▴ 20
15
votes
13
replies
583
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 10 weeks ago by ▴ 10 • written 11 weeks ago by ▴ 20
0
votes
6
replies
326
views
Getting paralogus genes from biomart for mouse
biomart biomaRt Ensembl
updated 5 months ago by 3.4k • written 6 months ago by • 0
0
votes
2
replies
413
views
News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
11 months ago • updated 8 months ago mchakiachvili ▴ 20
1
vote
1
reply
299
views
topGO question
Ensembl ensembldb
updated 13 months ago by 58k • written 13 months ago by • 0
0
votes
0
replies
270
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News: Ensembl 102 has been released
Ensembl biomaRt BioMar ensembldb
13 months ago mchakiachvili ▴ 20
4
votes
8
replies
4.7k
views
Ensembl site unresponsive
ensembl biomart
updated 9 months ago by • 0 • written 15 months ago by ▴ 30
2
votes
11
replies
2.4k
views
biomaRT connexion problem make failed my unit tests
biomaRt Peer's Certificate Ensembl
updated 11 months ago by ★ 5.3k • written 16 months ago by • 0
4
votes
17
replies
864
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 16 months ago by 3.4k • written 16 months ago by ▴ 10
0
votes
1
reply
406
views
News: Ensembl 101 hase been released
Ensembl BioMart News
17 months ago mchakiachvili ▴ 20
1
vote
3
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644
views
Convert mouse gene ids to hamster gene ids
biomart R ensembl
updated 9 months ago by 3.4k • written 18 months ago by • 0
1
vote
0
replies
332
views
News: ensembldb EnsDb databases for Ensembl release 100 added to AnnotationHub
ensembl annotation ensembldb News
20 months ago Johannes Rainer ★ 1.9k
1
vote
0
replies
233
views
News: Ensembl 100 has been released
biomart ensembl e100 mart news News
21 months ago Thomas Maurel ▴ 790
0
votes
4
replies
278
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 21 months ago by 35k • written 21 months ago by • 0
1
vote
2
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650
views
getBM biomart ensembl Error report
biomaRt ensembl
updated 21 months ago by ★ 5.3k • written 21 months ago by • 0
0
votes
1
reply
471
views
ChIPSeeker with Ensembl IDs
chipseeker Ensembl EnsDb.Mmusculus.v79 ensembldb
21 months ago Assa Yeroslaviz ★ 1.5k
0
votes
2
replies
277
views
Error in martCheck(mart, c("ensembl", "ENSEMBL_MART_ENSEMBL")) : No dataset selected, please select a dataset first.
biomart mart ensembl
updated 22 months ago by 58k • written 22 months ago by • 0
0
votes
0
replies
166
views
News: Changes to BioMart in Ensembl release 100 and Ensembl Genomes release 47
biomaRt Ensembl News
23 months ago Astrid_Ensembl • 0
4
votes
4
replies
381
views
biomaRt getSequence fails with genomic coordinates
biomart getSequence genomic coordinates ENSEMBL bug report
updated 23 months ago by ★ 5.3k • written 23 months ago by ▴ 10
0
votes
1
reply
145
views
Question regarding retrieving miRNA sequences from ENSEMBLE
ensembl
updated 24 months ago by 35k • written 24 months ago by • 0
0
votes
0
replies
244
views
News: Ensembl 99 has been released and renaming of species
biomart ensembl e99 mart news News
2.0 years ago Thomas Maurel ▴ 790
4
votes
11
replies
556
views
Dealing with duplicated genes in camera gene set testing
limma camera gene set testing ensembl
updated 2.1 years ago by ★ 2.8k • written 2.1 years ago by ▴ 10
1
vote
3
replies
1.1k
views
AnnotationHub timeout for Ensembl Mouse GTF
AnnotationHub Ensembl Mouse AnnotationHub Ensembl
2.1 years ago dmgatti ▴ 10
0
votes
14
replies
472
views
Error while opening Mart with biomaRt package
software error ensembl biomart
2.1 years ago loicborcard01 • 0
0
votes
6
replies
295
views
Anyone else having trouble with biomaRt (Oct 10, 2019)
ensembl biomaRt
updated 2.3 years ago by ★ 5.3k • written 2.3 years ago by ▴ 970
0
votes
7
replies
918
views
BioMart does not find mouse homologs of human genes
biomart homolog ortholog gene conversion ensembl
updated 2.3 years ago by 58k • written 2.3 years ago by ▴ 30
0
votes
0
replies
323
views
News: Ensembl 98 has been released and renaming of species
biomart ensembl e98 mart News
2.3 years ago Thomas Maurel ▴ 790
0
votes
1
reply
267
views
Eliminate redundancy in biomaRt (2.38.0) query
biomaRt Ensembl
updated 2.5 years ago by ★ 5.3k • written 2.5 years ago by • 0
0
votes
3
replies
456
views
external_gene_id attribute removed from new biomaRt version
biomaRt Ensembl Ensemblplants
2.5 years ago Didi ▴ 10
1
vote
0
replies
370
views
News: ensembldb EnsDb databases for Ensembl release 97 added to AnnotationHub
annotation ensembldb Ensembl News
2.5 years ago Johannes Rainer ★ 1.9k
1
vote
0
replies
297
views
News: Ensembl 97 has been released
biomart ensembl e97 News
2.6 years ago James Allen ▴ 10
10
votes
8
replies
1.1k
views
Best alternative annotation package to BiomaRt
R biomaRt Ensembl rnaseq
2.6 years ago m93 ▴ 10
0
votes
1
reply
439
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string
biomart ensembl R Bioconductor
2.6 years ago lbuo • 0
0
votes
4
replies
655
views
Error message: "Request to BioMart web service failed."
BiocManager biomaRt listMarts() ensembl Biomart
updated 2.6 years ago by ★ 5.3k • written 2.6 years ago by • 0
3
votes
2
replies
468
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart geo software error ensembl
updated 2.6 years ago by ★ 5.3k • written 2.6 years ago by ▴ 10
1
vote
1
reply
339
views
Gene biotype for a given symbol
ensembl
updated 2.6 years ago by ★ 1.9k • written 2.6 years ago by • 0
1
vote
3
replies
857
views
Scan error using biomart getBM with version option and host set
biomart ensembl getbm
2.7 years ago Marc Saric ▴ 70
2
votes
0
replies
372
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 2.7 years ago by • 0 • written 2.7 years ago by 2.9k
6
votes
5
replies
2.2k
views
biomaRt Ensembl gene ID to multiple HGNC symbol
ensembl symbol hgnc biomart
updated 2.7 years ago by 58k • written 2.7 years ago by ▴ 80
0
votes
0
replies
324
views
News: Ensembl 96 has been released
ensembl biomart biomaRt e96 news News
2.8 years ago amonida ▴ 20
4
votes
5
replies
688
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 2.8 years ago by 58k • written 2.8 years ago by ▴ 10
0
votes
0
replies
450
views
News: ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub annotationdata ensembl gtf 2bit News
2.9 years ago shepherl 2.9k
0
votes
1
reply
466
views
News: Ensembl 95 has been released
ensembl biomart biomaRt e95 News
3.0 years ago Thomas Maurel ▴ 790
2
votes
3
replies
538
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
3.1 years ago rtwest • 0
2
votes
1
reply
834
views
Ensemble and Entrez disconnected?
ensembl entrez biomart org.hs.eg.db
updated 3.1 years ago by 58k • written 3.1 years ago by • 0
0
votes
1
reply
478
views
Pick coding vs non-coding from Ensembl data set
R ensembl ensembldb noncoding rna protein coding
updated 3.2 years ago by ★ 1.9k • written 3.2 years ago by • 0
3
votes
6
replies
1.0k
views
biomaRt: Ensembl -> Entrez conversion error?
biomart entrez gene identifiers ensembl conversion
updated 3.2 years ago by ★ 5.3k • written 3.2 years ago by ▴ 10
0
votes
3
replies
755
views
DESeq2: removal of duplicated genes during statistical analysis
deseq2 gene symbol ensembl
updated 3.2 years ago by 35k • written 3.2 years ago by ▴ 10
5
votes
10
replies
1.2k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 12 months ago by ★ 1.9k • written 3.2 years ago by ★ 3.2k
50 results • Page 1 of 1
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Comment: DiffBind dba.count Error in if (sum(tokeep) < length(tokeep)) by tjhwangxiong • 0
``` https://drive.google.com/drive/folders/1787thVatZpt_KFrfXY-aXV1m0FRm8Mhm?usp=sharing ``` Thanks for your reply. I have uploaded the fil…
Comment: Trying to follow a gene set analyisis in R by Michael Love 35k
No I can’t help with exercises. Just to be clear I’m not affiliated with Harvard and have no supported effort in relation to the edx classe…
Answer: Problems to find the pvalues via rowttests by Gordon Smyth 44k
Ordinary t-tests aren't recommended for genomic analyses because they have poor power and higher false discovery rates. Using the limma p…
Answer: How to insert a qvalues column in a dataframe with pvalues in R by Gordon Smyth 44k
Here and in a previous post, it seems you're not using recommended Bioconductor workflows for Affymetrix microarrays. If you used a standar…
Comment: Trying to follow a gene set analyisis in R by leonardorosas2001 • 0
Thank you. I hope I can still let you know if I have issues with your exercises. They are very challenging but useful! :)
Votes
Answer: Problems to find the pvalues via rowttests
A: How to use subSeq with DNAStringSet and information of GroupedIRanges?
A: How to use subSeq with DNAStringSet and information of GroupedIRanges?
Annotating GRanges with TxDb gene models using plyranges
plyranges select() when a metadata column is shared with core variable
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