Showing : Biomart • reset
0
votes
3
replies
404
views
getBM from biomaRt inconsistencies found with .gtf files across multiple species
.gtf biomaRt Ensembl
updated 1 day ago by ★ 6.6k • written 1 day ago by ▴ 20
0
votes
4
replies
255
views
Ensembl site unresponsive via biomaRt
biomaRt
updated 2 days ago by ▴ 10 • written 2 days ago by • 0
3
votes
5
replies
1.2k
views
Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
limma edgeR biomaRt
updated 9 weeks ago by 68k • written 9 weeks ago by ▴ 10
0
votes
2
replies
810
views
Error using useMart or useEnsembl
biomaRt
updated 9 weeks ago by 68k • written 9 weeks ago by • 0
0
votes
4
replies
909
views
Biomart and ensembl not working?
ensembldb biomaRt
updated 10 weeks ago by 68k • written 10 weeks ago by • 0
3
votes
9
replies
914
views
Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) returning drastically different numbers of transcripts
AnnotationDbi EnsDb.Mmusculus.v79 biomaRt org.Mm.eg.db
updated 7 weeks ago by • 0 • written 11 weeks ago by • 0
4
votes
9
replies
2.2k
views
biomaRt rnorvegicus_gene_ensembl not available anymore
Rattus_norvegicus biomaRt
updated 3 months ago by 68k • written 4 months ago by ▴ 20
0
votes
0
replies
428
views
News: Ensembl 113 has been released
ensembl ensembldb mart biomaRt
5 months ago Ensembl_Jorge • 0
0
votes
1
reply
512
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 6 months ago by ★ 6.6k • written 6 months ago by • 0
2
votes
2
replies
1.4k
views
Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
6 months ago 2044291597 • 0
1
vote
3
replies
1.3k
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 6 months ago by 68k • written 13 months ago by ▴ 10
1
vote
4
replies
1.2k
views
BiomaRt Possible Ensembl SSL connectivity problems detected.
PureCN biomaRt
updated 4 months ago by • 0 • written 6 months ago by • 0
1
vote
4
replies
954
views
How to Query Only SNPs from the biomaRt Variation Database
biomaRt
7 months ago kschecht • 0
2
votes
8
replies
2.4k
views
biomaRt getLDS error
biomaRt
7 months ago mark.dunning ▴ 20
1
vote
2
replies
1.2k
views
Issues with retrieving mouse SNP dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
9 months ago Svitlana ▴ 10
0
votes
0
replies
394
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
9 months ago Reese • 0
0
votes
2
replies
684
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
10 months ago landenshanie ▴ 40
0
votes
0
replies
365
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
10 months ago Abiologist • 0
1
vote
0
replies
623
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
10 months ago Aleena ▴ 30
1
vote
3
replies
670
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 11 months ago by 68k • written 11 months ago by ▴ 30
2
votes
2
replies
1.0k
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 11 months ago by 68k • written 11 months ago by • 0
0
votes
1
reply
550
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 11 months ago by 68k • written 11 months ago by • 0
0
votes
1
reply
1.4k
views
error in mapIds function
mapIds biomaRt
updated 13 months ago by 700 • written 13 months ago by • 0
0
votes
2
replies
1.2k
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
13 months ago eefernan5 • 0
3
votes
3
replies
14k
views
How to find rsID with biomaRt in R
biomaRt
updated 13 months ago by 68k • written 4.1 years ago by ▴ 10
0
votes
1
reply
534
views
biomaRt issue
biomaRt
updated 13 months ago by ★ 6.6k • written 13 months ago by • 0
1
vote
5
replies
1.7k
views
BiomaRt download data error
biomaRt
updated 13 months ago by ★ 6.6k • written 13 months ago by • 0
6
votes
9
replies
3.0k
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 14 months ago by • 0 • written 14 months ago by • 0
1
vote
1
reply
1.7k
views
Error with biomaRt
biomaRt
updated 14 months ago by ★ 6.6k • written 14 months ago by • 0
4
votes
2
replies
975
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 14 months ago by ★ 4.1k • written 14 months ago by • 0
2
votes
2
replies
1.2k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
14 months ago bd2000 ▴ 30
1
vote
0
replies
528
views
News: Ensembl 111 has been released
Ensembl biomaRt
14 months ago Benjamin ▴ 30
0
votes
2
replies
1.0k
views
Problem with loading ensembl version 105.
biomaRt
15 months ago RC • 0
0
votes
1
reply
1.7k
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 15 months ago by 68k • written 15 months ago by • 0
0
votes
3
replies
1.3k
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 15 months ago by ★ 3.4k • written 16 months ago by ▴ 30
4
votes
12
replies
1.9k
views
Ensembl down???
biomaRt
16 months ago • updated 15 months ago bas_work ▴ 30
3
votes
2
replies
825
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
16 months ago henrydionne ▴ 10
1
vote
2
replies
1.8k
views
How to find stop codons for a list of genes
stopcodon biomaRt
16 months ago Marek Gierlinski ▴ 30
0
votes
10
replies
1.5k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
16 months ago • updated 13 months ago ScafioRuo • 0
12
votes
10
replies
14k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 12 months ago by • 0 • written 17 months ago by ▴ 20
0
votes
3
replies
895
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 17 months ago by 52k • written 17 months ago by • 0
1
vote
4
replies
1.2k
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
18 months ago andrew.b.kleist ▴ 10
7
votes
6
replies
7.5k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 17 months ago by 700 • written 2.6 years ago by ▴ 20
0
votes
2
replies
797
views
Biomart - upstream region of 'coding'
biomaRt
updated 18 months ago by ★ 6.6k • written 18 months ago by ▴ 20
0
votes
0
replies
679
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
19 months ago ali.oghabian • 0
1
vote
5
replies
970
views
Errors with makeTxDbFromBiomart
biomaRt
updated 19 months ago by 68k • written 19 months ago by ▴ 10
3
votes
2
replies
2.3k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 19 months ago by ★ 4.1k • written 19 months ago by ▴ 10
0
votes
3
replies
1.4k
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 19 months ago by 16k • written 20 months ago by • 0
1
vote
2
replies
1.1k
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
20 months ago Miguel • 0
0
votes
1
reply
938
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 20 months ago by 68k • written 20 months ago by • 0
50 results • Page 1 of 1
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Comment: Annotation package for Manduca sexta by GA ▴ 10
Thank you!
Comment: Improving performance of edgeR and limma while adjusting for multiple confounder by ATpoint ★ 4.8k
If 2 minutes is inacceptable to you then you can still fall back to limma-trend which should give a dramatic speedup and finish in seconds.…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
Great, thanks for the update from Ensembl. So the most relevant part of 'Location: Scaffold HG1277_PATCH: 137,021-141,806 forward strand' …
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
Votes
Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
A: Is logFC a log2 fold change or some other base in scran::findMarkers
Comment: Error in retrieving clinical data
What is the cheapest day to fly on American Airlines? {Ask_Expert}
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