Showing : BiomaRt • reset
3
votes
5
replies
922
views
Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
limma edgeR biomaRt
updated 4 weeks ago by 68k • written 4 weeks ago by ▴ 10
0
votes
2
replies
415
views
Error using useMart or useEnsembl
biomaRt
updated 4 weeks ago by 68k • written 4 weeks ago by • 0
0
votes
4
replies
505
views
Biomart and ensembl not working?
ensembldb biomaRt
updated 5 weeks ago by 68k • written 5 weeks ago by • 0
2
votes
9
replies
725
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 15 days ago by • 0 • written 6 weeks ago by • 0
4
votes
9
replies
1.9k
views
biomaRt rnorvegicus_gene_ensembl not available anymore
Rattus_norvegicus biomaRt
updated 9 weeks ago by 68k • written 3 months ago by ▴ 20
0
votes
0
replies
341
views
News: Ensembl 113 has been released
ensembl ensembldb mart biomaRt
4 months ago Ensembl_Jorge • 0
0
votes
1
reply
419
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 4 months ago by ★ 6.6k • written 4 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
4 months ago 2044291597 • 0
1
vote
3
replies
1.2k
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 5 months ago by 68k • written 12 months ago by ▴ 10
1
vote
4
replies
1.1k
views
BiomaRt Possible Ensembl SSL connectivity problems detected.
PureCN biomaRt
updated 3 months ago by • 0 • written 5 months ago by • 0
1
vote
4
replies
816
views
How to Query Only SNPs from the biomaRt Variation Database
biomaRt
6 months ago kschecht • 0
2
votes
8
replies
1.9k
views
biomaRt getLDS error
biomaRt
6 months ago mark.dunning ▴ 20
1
vote
2
replies
1.1k
views
Issues with retrieving mouse SNP dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
8 months ago • updated 7 months ago Svitlana ▴ 10
0
votes
0
replies
359
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
8 months ago Reese • 0
0
votes
2
replies
605
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
9 months ago landenshanie ▴ 40
0
votes
0
replies
341
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
9 months ago Abiologist • 0
1
vote
0
replies
570
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
9 months ago Aleena ▴ 30
1
vote
3
replies
618
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 10 months ago by 68k • written 10 months ago by ▴ 30
2
votes
2
replies
931
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 10 months ago by 68k • written 10 months ago by • 0
0
votes
1
reply
505
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 10 months ago by 68k • written 10 months ago by • 0
0
votes
1
reply
1.2k
views
error in mapIds function
mapIds biomaRt
updated 11 months ago by 700 • written 12 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
12 months ago eefernan5 • 0
3
votes
3
replies
13k
views
How to find rsID with biomaRt in R
biomaRt
updated 12 months ago by 68k • written 4.0 years ago by ▴ 10
0
votes
1
reply
489
views
biomaRt issue
biomaRt
updated 12 months ago by ★ 6.6k • written 12 months ago by • 0
1
vote
5
replies
1.5k
views
BiomaRt download data error
biomaRt
updated 12 months ago by ★ 6.6k • written 12 months ago by • 0
6
votes
9
replies
2.7k
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 12 months ago by • 0 • written 12 months ago by • 0
1
vote
1
reply
1.6k
views
Error with biomaRt
biomaRt
updated 13 months ago by ★ 6.6k • written 13 months ago by • 0
4
votes
2
replies
915
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 13 months ago by ★ 4.1k • written 13 months ago by • 0
2
votes
2
replies
1.2k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
13 months ago bd2000 ▴ 30
1
vote
0
replies
494
views
News: Ensembl 111 has been released
Ensembl biomaRt
13 months ago Benjamin ▴ 30
0
votes
2
replies
945
views
Problem with loading ensembl version 105.
biomaRt
14 months ago RC • 0
0
votes
1
reply
1.5k
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 14 months ago by 68k • written 14 months ago by • 0
0
votes
3
replies
1.2k
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 14 months ago by ★ 3.4k • written 14 months ago by ▴ 30
4
votes
12
replies
1.7k
views
Ensembl down???
biomaRt
15 months ago • updated 14 months ago bas_work ▴ 30
3
votes
2
replies
782
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
15 months ago henrydionne ▴ 10
1
vote
2
replies
1.7k
views
How to find stop codons for a list of genes
stopcodon biomaRt
15 months ago Marek Gierlinski ▴ 30
0
votes
10
replies
1.4k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
15 months ago • updated 11 months ago ScafioRuo • 0
12
votes
10
replies
13k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 11 months ago by • 0 • written 16 months ago by ▴ 20
0
votes
3
replies
854
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 16 months ago by 52k • written 16 months ago by • 0
1
vote
4
replies
1.1k
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
17 months ago • updated 16 months ago andrew.b.kleist ▴ 10
7
votes
6
replies
6.9k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 16 months ago by 700 • written 2.5 years ago by ▴ 20
0
votes
2
replies
752
views
Biomart - upstream region of 'coding'
biomaRt
updated 17 months ago by ★ 6.6k • written 17 months ago by ▴ 20
0
votes
0
replies
650
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
18 months ago ali.oghabian • 0
1
vote
5
replies
932
views
Errors with makeTxDbFromBiomart
biomaRt
updated 18 months ago by 68k • written 18 months ago by ▴ 10
3
votes
2
replies
2.1k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 18 months ago by ★ 4.1k • written 18 months ago by ▴ 10
0
votes
3
replies
1.3k
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 18 months ago by 16k • written 19 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
19 months ago Miguel • 0
0
votes
1
reply
899
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 19 months ago by 68k • written 19 months ago by • 0
0
votes
1
reply
2.6k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 19 months ago by 43k • written 19 months ago by ▴ 30
0
votes
1
reply
1.3k
views
multiple filters in biomaRt
biomaRt
updated 20 months ago by ▴ 10 • written 21 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: EuroBioC2023 abstract submission is open! by cirwin009 • 0
Submit here https://openreview.net/group?id=bioconductor.org/EuroBioC/2023/ [Block Blast][1] This article offers a thorough and in-depth…
Comment: How to formulate 2 factor nested design in DESeq2 by Mariane • 0
Hi JK Kim, I'm having a problem similar to the one you reported. Could you please tell me how you solved this problem? Thanks
Comment: batch effect removal for agilent microarray data by gaye.yilmaz • 0
Thank you
Answer: Pathview visualisation not including positive log2 fold changes by James W. MacDonald 68k
Without providing a self-contained example, nobody can tell you if/where you went wrong. Since you get a KEGG pathway with some of the gene…
Comment: Differential variance analysis - can i use deseq2 by Marwan • 0
Thanks Michael for your answer, i didnt mean to use Deseq2 directly for the variance testing, but more like asking if using the (VST) data…
Votes
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
A: How to extract DESeq2 results for an interaction design
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
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Scholar to Michael Love 43k
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