Showing : BiomaRt • reset
5
votes
4
replies
9.7k
views
Getting rs ids using chr coordinates | Biomart
SNP rs id Biomart Chromosome coordinates
updated 9 months ago by 65k • written 3.7 years ago by • 0
3
votes
3
replies
9.4k
views
How to find rsID with biomaRt in R
biomaRt
updated 12 weeks ago by 65k • written 3.2 years ago by ▴ 10
22
votes
15
replies
7.5k
views
biomaRt error unable to fix: need help troubleshooting
biomaRt RNASeqData R
updated 5 months ago by ▴ 10 • written 2.1 years ago by ▴ 50
7
votes
5
replies
7.0k
views
biomaRt server error, and mirrors do not help
ensembl biomaRt R
updated 6 months ago by • 0 • written 2.0 years ago by ▴ 40
10
votes
10
replies
6.9k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 6 weeks ago by • 0 • written 6 months ago by ▴ 10
1
vote
7
replies
4.5k
views
Problems Installing biomaRt
biomaRt
updated 5 months ago by 65k • written 2.1 years ago by ▴ 20
7
votes
6
replies
4.1k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 6 months ago by 690 • written 21 months ago by ▴ 20
4
votes
4
replies
1.7k
views
biomaRt error: database disk image is malformed
biomaRt
updated 11 months ago by • 0 • written 2.6 years ago by ▴ 10
0
votes
1
reply
1.5k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 9 months ago by 41k • written 9 months ago by ▴ 30
0
votes
3
replies
1.4k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 12 months ago by ▴ 30
1
vote
4
replies
1.1k
views
Issue with Biomart- cannot access ensembl
biomaRT
updated 6 weeks ago by 65k • written 4.1 years ago by • 0
3
votes
2
replies
1.1k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 8 months ago by ★ 3.9k • written 8 months ago by ▴ 10
0
votes
3
replies
1.0k
views
Problem installing biomaRt on mac
biomaRt mac
updated 8 months ago by ▴ 50 • written 18 months ago by • 0
0
votes
1
reply
966
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.5 years ago by • 0
4
votes
12
replies
965
views
Ensembl down???
biomaRt
5 months ago bas_work ▴ 30
2
votes
4
replies
936
views
Use with_go along with other filters in getBM function
Annotation biomaRt
11 months ago RuBBiT0 ▴ 10
0
votes
1
reply
830
views
multiple filters in biomaRt
biomaRt
updated 11 months ago by ▴ 10 • written 11 months ago by • 0
0
votes
10
replies
816
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
5 months ago • updated 9 weeks ago ScafioRuo • 0
1
vote
2
replies
799
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 11 months ago by ★ 6.5k • written 11 months ago by • 0
0
votes
3
replies
778
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 8 months ago by 16k • written 9 months ago by • 0
6
votes
9
replies
765
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 3 months ago by • 0 • written 3 months ago by • 0
0
votes
1
reply
708
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 5 months ago by 65k • written 5 months ago by • 0
0
votes
2
replies
700
views
biomart not ound some prevous release
biomart rnaseq
written 5.2 years ago by ▴ 40
1
vote
4
replies
672
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
7 months ago andrew.b.kleist ▴ 10
1
vote
2
replies
660
views
How to find stop codons for a list of genes
stopcodon biomaRt
5 months ago Marek Gierlinski ▴ 30
2
votes
2
replies
652
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
3 months ago bd2000 ▴ 30
0
votes
1
reply
620
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 9 months ago by 65k • written 9 months ago by • 0
1
vote
2
replies
610
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
9 months ago Miguel • 0
1
vote
5
replies
608
views
Errors with makeTxDbFromBiomart
biomaRt
updated 8 months ago by 65k • written 8 months ago by ▴ 10
0
votes
3
replies
470
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 6 months ago by 50k • written 6 months ago by • 0
0
votes
2
replies
460
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
11 weeks ago eefernan5 • 0
1
vote
5
replies
427
views
BiomaRt download data error
biomaRt
updated 12 weeks ago by ★ 6.5k • written 12 weeks ago by • 0
3
votes
2
replies
422
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
5 months ago henrydionne ▴ 10
1
vote
1
reply
404
views
Error with biomaRt
biomaRt
updated 3 months ago by ★ 6.5k • written 3 months ago by • 0
0
votes
2
replies
399
views
Problem with loading ensembl version 105.
biomaRt
4 months ago RC • 0
0
votes
3
replies
383
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 5 months ago by ★ 3.3k • written 5 months ago by ▴ 30
0
votes
0
replies
381
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
8 months ago ali.oghabian • 0
0
votes
2
replies
366
views
Biomart - upstream region of 'coding'
biomaRt
updated 7 months ago by ★ 6.5k • written 7 months ago by ▴ 20
4
votes
2
replies
363
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 3 months ago by ★ 3.9k • written 3 months ago by • 0
0
votes
1
reply
293
views
error in mapIds function
mapIds biomaRt
updated 9 weeks ago by 690 • written 10 weeks ago by • 0
1
vote
1
reply
227
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 11 weeks ago by • 0 • written 12 weeks ago by ▴ 10
0
votes
1
reply
223
views
biomaRt issue
biomaRt
updated 12 weeks ago by ★ 6.5k • written 12 weeks ago by • 0
1
vote
0
replies
209
views
News: Ensembl 111 has been released
Ensembl biomaRt
3 months ago Benjamin ▴ 30
2
votes
2
replies
187
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 15 days ago by 65k • written 16 days ago by • 0
0
votes
3
replies
151
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 15 days ago by 65k • written 15 days ago by ▴ 30
0
votes
1
reply
143
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 4 weeks ago by 65k • written 4 weeks ago by • 0
46 results • Page 1 of 1
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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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