Showing : BioMart • reset
0
votes
3
replies
102
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 6 days ago by 65k • written 6 days ago by ▴ 30
2
votes
2
replies
139
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 6 days ago by 65k • written 6 days ago by • 0
0
votes
1
reply
126
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 23 days ago by 65k • written 23 days ago by • 0
0
votes
2
replies
690
views
biomart not ound some prevous release
biomart rnaseq
written 5.2 years ago by ▴ 40
1
vote
4
replies
1.1k
views
Issue with Biomart- cannot access ensembl
biomaRT
updated 5 weeks ago by 65k • written 4.0 years ago by • 0
10
votes
10
replies
6.6k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 5 weeks ago by • 0 • written 6 months ago by ▴ 10
0
votes
10
replies
792
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
5 months ago • updated 7 weeks ago ScafioRuo • 0
0
votes
1
reply
267
views
error in mapIds function
mapIds biomaRt
updated 8 weeks ago by 690 • written 8 weeks ago by • 0
0
votes
2
replies
440
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
10 weeks ago eefernan5 • 0
1
vote
1
reply
213
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 10 weeks ago by • 0 • written 11 weeks ago by ▴ 10
3
votes
3
replies
9.3k
views
How to find rsID with biomaRt in R
biomaRt
updated 11 weeks ago by 65k • written 3.1 years ago by ▴ 10
0
votes
1
reply
207
views
biomaRt issue
biomaRt
updated 11 weeks ago by ★ 6.5k • written 11 weeks ago by • 0
1
vote
5
replies
395
views
BiomaRt download data error
biomaRt
updated 11 weeks ago by ★ 6.5k • written 11 weeks ago by • 0
6
votes
9
replies
716
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 12 weeks ago by • 0 • written 12 weeks ago by • 0
1
vote
1
reply
356
views
Error with biomaRt
biomaRt
updated 3 months ago by ★ 6.5k • written 3 months ago by • 0
4
votes
2
replies
344
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
607
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
3 months ago bd2000 ▴ 30
1
vote
0
replies
190
views
News: Ensembl 111 has been released
Ensembl biomaRt
3 months ago Benjamin ▴ 30
0
votes
2
replies
374
views
Problem with loading ensembl version 105.
biomaRt
4 months ago RC • 0
0
votes
1
reply
670
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 4 months ago by 65k • written 4 months ago by • 0
4
votes
12
replies
930
views
Ensembl down???
biomaRt
4 months ago bas_work ▴ 30
0
votes
3
replies
360
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 4 months ago by ★ 3.3k • written 4 months ago by ▴ 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
0
votes
1
reply
953
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.4 years ago by • 0
1
vote
2
replies
618
views
How to find stop codons for a list of genes
stopcodon biomaRt
5 months ago Marek Gierlinski ▴ 30
1
vote
7
replies
4.4k
views
Problems Installing biomaRt
biomaRt
updated 5 months ago by 65k • written 2.0 years ago by ▴ 20
22
votes
15
replies
7.4k
views
biomaRt error unable to fix: need help troubleshooting
biomaRt RNASeqData R
updated 5 months ago by ▴ 10 • written 2.0 years ago by ▴ 50
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
0
votes
3
replies
1.3k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 12 months ago by ▴ 30
7
votes
5
replies
6.9k
views
biomaRt server error, and mirrors do not help
ensembl biomaRt R
updated 6 months ago by • 0 • written 24 months ago by ▴ 40
7
votes
6
replies
4.1k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 6 months ago by 690 • written 20 months ago by ▴ 20
1
vote
4
replies
649
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
7 months ago • updated 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
votes
0
replies
361
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
8 months ago ali.oghabian • 0
1
vote
5
replies
590
views
Errors with makeTxDbFromBiomart
biomaRt
updated 8 months ago by 65k • written 8 months ago by ▴ 10
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
987
views
Problem installing biomaRt on mac
biomaRt mac
updated 8 months ago by ▴ 50 • written 17 months ago by • 0
0
votes
3
replies
756
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 8 months ago by 16k • written 9 months ago by • 0
1
vote
2
replies
590
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
9 months ago Miguel • 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
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
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
0
votes
1
reply
808
views
multiple filters in biomaRt
biomaRt
updated 10 months ago by ▴ 10 • written 11 months ago by • 0
2
votes
4
replies
914
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
3
votes
4
replies
1.7k
views
biomaRt error: database disk image is malformed
biomaRt
updated 11 months ago by • 0 • written 2.5 years 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
1
reply
1.4k
views
biomaRt - NameSpace loading failed
biomaRt bioma
updated 12 months ago by ★ 6.5k • written 12 months ago by • 0
0
votes
3
replies
656
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
50 results • Page 1 of 1
Recent ...
Replies
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre
Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…
Votes
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
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