Showing : biomaRT • reset
0
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3
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98
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 5 days ago by 65k • written 5 days ago by ▴ 30
2
votes
2
replies
136
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 5 days ago by 65k • written 5 days ago by • 0
0
votes
1
reply
121
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 22 days ago by 65k • written 22 days ago by • 0
0
votes
1
reply
262
views
error in mapIds function
mapIds biomaRt
updated 8 weeks ago by 690 • written 8 weeks ago by • 0
0
votes
2
replies
439
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
10 weeks ago • updated 9 weeks ago eefernan5 • 0
1
vote
1
reply
210
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 10 weeks ago by • 0 • written 10 weeks ago by ▴ 10
0
votes
1
reply
204
views
biomaRt issue
biomaRt
updated 10 weeks ago by ★ 6.5k • written 11 weeks ago by • 0
1
vote
5
replies
385
views
BiomaRt download data error
biomaRt
updated 11 weeks ago by ★ 6.5k • written 11 weeks ago by • 0
6
votes
9
replies
711
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 11 weeks ago by • 0 • written 12 weeks ago by • 0
1
vote
1
reply
353
views
Error with biomaRt
biomaRt
updated 3 months ago by ★ 6.5k • written 3 months ago by • 0
4
votes
2
replies
343
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 3 months ago by ★ 3.9k • written 3 months ago by • 0
2
votes
2
replies
603
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
3 months ago bd2000 ▴ 30
1
vote
0
replies
182
views
News: Ensembl 111 has been released
Ensembl biomaRt
3 months ago Benjamin ▴ 30
0
votes
2
replies
371
views
Problem with loading ensembl version 105.
biomaRt
4 months ago RC • 0
0
votes
1
reply
663
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 4 months ago by 65k • written 4 months ago by • 0
0
votes
3
replies
358
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 4 months ago by ★ 3.3k • written 4 months ago by ▴ 30
4
votes
12
replies
926
views
Ensembl down???
biomaRt
4 months ago bas_work ▴ 30
3
votes
2
replies
410
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
5 months ago • updated 4 months ago henrydionne ▴ 10
1
vote
2
replies
610
views
How to find stop codons for a list of genes
stopcodon biomaRt
5 months ago Marek Gierlinski ▴ 30
0
votes
10
replies
791
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
5 months ago • updated 7 weeks ago ScafioRuo • 0
10
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10
replies
6.6k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 4 weeks ago by • 0 • written 5 months ago by ▴ 10
0
votes
3
replies
459
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
1
vote
4
replies
649
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
6 months ago andrew.b.kleist ▴ 10
0
votes
2
replies
354
views
Biomart - upstream region of 'coding'
biomaRt
updated 7 months ago by ★ 6.5k • written 7 months ago by ▴ 20
0
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0
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359
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Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
8 months ago ali.oghabian • 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
1
vote
5
replies
590
views
Errors with makeTxDbFromBiomart
biomaRt
updated 8 months ago by 65k • written 8 months ago by ▴ 10
1
vote
2
replies
587
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
9 months ago Miguel • 0
0
votes
3
replies
751
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 8 months ago by 16k • written 9 months ago by • 0
0
votes
1
reply
606
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 9 months ago by 65k • written 9 months ago by • 0
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
2
votes
4
replies
912
views
Use with_go along with other filters in getBM function
Annotation biomaRt
11 months ago • updated 10 months ago RuBBiT0 ▴ 10
1
vote
2
replies
771
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 10 months ago by ★ 6.5k • written 11 months ago by • 0
0
votes
1
reply
803
views
multiple filters in biomaRt
biomaRt
updated 10 months ago by ▴ 10 • written 11 months ago by • 0
0
votes
3
replies
541
views
BioMart Error message when pulling sequences
biomaRt bioma
updated 12 months ago by ★ 6.5k • written 12 months ago by • 0
0
votes
3
replies
1.3k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 12 months ago by ▴ 30
0
votes
1
reply
1.3k
views
biomaRt - NameSpace loading failed
biomaRt bioma
updated 12 months ago by ★ 6.5k • written 12 months ago by • 0
0
votes
3
replies
654
views
BiomaRt: problems annotating a list of DEGs from DESeq2
biomaRt
updated 12 months ago by 41k • written 12 months ago by • 0
0
votes
2
replies
1.0k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 12 months ago by ★ 2.0k • written 12 months ago by • 0
0
votes
3
replies
697
views
How to getting synonymous SNPs from BiomaRt before timing out?
biomaRt SNP
updated 13 months ago by 65k • written 13 months ago by • 0
0
votes
2
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747
views
Retrieving true orthologs between species BiomaRt
Orthologs BiomaRt
updated 13 months ago by 65k • written 13 months ago by • 0
0
votes
4
replies
937
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
14 months ago Dr. • 0
0
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0
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680
views
BiomaRt - Problem to access homolog lists
biomaRt ensembldb
14 months ago ginie.dub • 0
3
votes
3
replies
1.7k
views
transcript name mapping between human and mouse
biomaRt getLDS
updated 15 months ago by 65k • written 15 months ago by ▴ 20
1
vote
4
replies
710
views
mmc57bl6nj_gene_ensembl biomaRt
biomaRt
15 months ago Maryam • 0
1
vote
3
replies
809
views
Convert Chromosome postion to gene symbol
biomaRt ensembldb
16 months ago mbansal • 0
1
vote
3
replies
766
views
Older source of biocFileCache package
biomaRt
updated 17 months ago by ★ 6.5k • written 17 months ago by • 0
1
vote
3
replies
1.4k
views
Error using biomaRt
biomaRt
updated 17 months ago by ★ 6.5k • written 17 months ago by ▴ 10
0
votes
3
replies
984
views
Problem installing biomaRt on mac
biomaRt mac
updated 8 months ago by ▴ 50 • written 17 months ago by • 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
50 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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