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Showing :
bioMart
•
reset
0
votes
0
replies
39
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
1 day ago
Reese
• 0
0
votes
2
replies
194
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db
biomaRt
26 days ago • updated 23 days ago
landenshanie
▴ 40
0
votes
0
replies
81
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
28 days ago • updated 27 days ago
Abiologist
• 0
1
vote
0
replies
119
views
News:
Ensembl 112 has been released.
ensembldb
biomaRt
ensemblrelease
4 weeks ago
Aleena
▴ 30
1
vote
3
replies
240
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 8 weeks ago by
James W. MacDonald
66k • written 8 weeks ago by
bas_work
▴ 30
2
votes
2
replies
284
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 8 weeks ago by
James W. MacDonald
66k • written 8 weeks ago by
sansan
• 0
0
votes
1
reply
202
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 10 weeks ago by
James W. MacDonald
66k • written 10 weeks ago by
Reeya
• 0
0
votes
1
reply
393
views
error in mapIds function
mapIds
biomaRt
updated 3 months ago by
Marcel Ramos
700 • written 3 months ago by
Regina
• 0
0
votes
2
replies
566
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
4 months ago
eefernan5
• 0
3
votes
3
replies
9.8k
views
How to find rsID with biomaRt in R
biomaRt
updated 4 months ago by
James W. MacDonald
66k • written 3.3 years ago by
Federica
▴ 10
1
vote
1
reply
283
views
502 error biomaRt getLDS()
ensembldb
biomaRt
updated 4 months ago by
Robin
• 0 • written 4 months ago by
Pez
▴ 10
0
votes
1
reply
260
views
biomaRt issue
biomaRt
updated 4 months ago by
Mike Smith
★ 6.5k • written 4 months ago by
Fariz
• 0
1
vote
5
replies
584
views
BiomaRt download data error
biomaRt
updated 4 months ago by
Mike Smith
★ 6.5k • written 4 months ago by
Max Bone
• 0
6
votes
9
replies
1.0k
views
biomaRt has encountered an unknown server error.
biomaRt
host
useEnsembl
updated 4 months ago by
alexander3
• 0 • written 4 months ago by
Amparo
• 0
1
vote
1
reply
572
views
Error with biomaRt
biomaRt
updated 5 months ago by
Mike Smith
★ 6.5k • written 5 months ago by
goldenboy
• 0
4
votes
2
replies
459
views
Enrichement with clusterProfiler and biomart
biomaRt
clusterProfiler
Zea_mays
updated 5 months ago by
Guido Hooiveld
★ 4.0k • written 5 months ago by
sansan
• 0
2
votes
2
replies
736
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
5 months ago
bd2000
▴ 30
1
vote
0
replies
285
views
News:
Ensembl 111 has been released
Ensembl
biomaRt
5 months ago
Benjamin
▴ 30
0
votes
2
replies
478
views
Problem with loading ensembl version 105.
biomaRt
5 months ago
RC
• 0
0
votes
1
reply
839
views
biomaRt_getBM_Failed to collect lazy table
getBM
biomaRt
updated 6 months ago by
James W. MacDonald
66k • written 6 months ago by
ai.yaku
• 0
0
votes
3
replies
512
views
Obtaining rsIDs with ENSG and variant ID information
rsid
biomaRt
updated 6 months ago by
Robert Castelo
★ 3.3k • written 6 months ago by
bd2000
▴ 30
4
votes
12
replies
1.1k
views
Ensembl down???
biomaRt
6 months ago
bas_work
▴ 30
3
votes
2
replies
493
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl
biomaRt
6 months ago
henrydionne
▴ 10
1
vote
2
replies
825
views
How to find stop codons for a list of genes
stopcodon
biomaRt
6 months ago
Marek Gierlinski
▴ 30
0
votes
10
replies
919
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R
BioMart
biomaRt
7 months ago • updated 3 months ago
ScafioRuo
• 0
11
votes
10
replies
8.2k
views
biomaRt not working - lazy table error
error
lazy
R
biomaRt
table
updated 12 weeks ago by
juo5
• 0 • written 7 months ago by
Abhishek
▴ 20
0
votes
3
replies
531
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 7 months ago by
Gordon Smyth
51k • written 7 months ago by
Marilyn
• 0
1
vote
4
replies
745
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
8 months ago
andrew.b.kleist
▴ 10
7
votes
6
replies
4.6k
views
Conversion of UniProt to Ensembl
biomaRt
ensembldb
UniProt.ws
updated 8 months ago by
Marcel Ramos
700 • written 22 months ago by
Recep
▴ 20
0
votes
2
replies
413
views
Biomart - upstream region of 'coding'
biomaRt
updated 9 months ago by
Mike Smith
★ 6.5k • written 9 months ago by
andrebolerbarros
▴ 20
0
votes
0
replies
423
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
9 months ago
ali.oghabian
• 0
1
vote
5
replies
659
views
Errors with makeTxDbFromBiomart
biomaRt
updated 10 months ago by
James W. MacDonald
66k • written 10 months ago by
Jerina
▴ 10
3
votes
2
replies
1.2k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG
DESeq2
biomaRt
clusterProfiler
org.Mm.eg.db
updated 10 months ago by
Guido Hooiveld
★ 4.0k • written 10 months ago by
Milan
▴ 10
0
votes
3
replies
874
views
Error with makeTxDbFromBiomart
DEXSeq
biomaRt
updated 10 months ago by
Hervé Pagès
16k • written 10 months ago by
anavmar1
• 0
1
vote
2
replies
684
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl
R
biomaRt
10 months ago
Miguel
• 0
0
votes
1
reply
663
views
Trouble using biomaRt to pull pathway genes from GO
GO
biomaRt
updated 11 months ago by
James W. MacDonald
66k • written 11 months ago by
cstorer
• 0
0
votes
1
reply
1.6k
views
News:
News:Ensembl 110 has been released
ensembldb
biomaRt
updated 10 months ago by
Michael Love
42k • written 11 months ago by
Benjamin
▴ 30
0
votes
1
reply
888
views
multiple filters in biomaRt
biomaRt
updated 12 months ago by
RuBBiT0
▴ 10 • written 12 months ago by
Yijing
• 0
2
votes
4
replies
1.0k
views
Use with_go along with other filters in getBM function
Annotation
biomaRt
12 months ago
RuBBiT0
▴ 10
1
vote
2
replies
859
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 12 months ago by
Mike Smith
★ 6.5k • written 12 months ago by
Yijing
• 0
0
votes
3
replies
631
views
BioMart Error message when pulling sequences
biomaRt
bioma
updated 13 months ago by
Mike Smith
★ 6.5k • written 13 months ago by
Luca
• 0
0
votes
3
replies
1.5k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 14 months ago by
nhaus
▴ 50
0
votes
1
reply
1.5k
views
biomaRt - NameSpace loading failed
biomaRt
bioma
updated 14 months ago by
Mike Smith
★ 6.5k • written 14 months ago by
Alessia
• 0
0
votes
3
replies
718
views
BiomaRt: problems annotating a list of DEGs from DESeq2
biomaRt
updated 14 months ago by
Michael Love
42k • written 14 months ago by
alan.g.hudson
• 0
0
votes
2
replies
1.1k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt
ensembldb
RNA
ensembl
updated 14 months ago by
Johannes Rainer
★ 2.1k • written 14 months ago by
Christopher
• 0
0
votes
3
replies
761
views
How to getting synonymous SNPs from BiomaRt before timing out?
biomaRt
SNP
updated 14 months ago by
James W. MacDonald
66k • written 15 months ago by
Damien
• 0
0
votes
2
replies
856
views
Retrieving true orthologs between species BiomaRt
Orthologs
BiomaRt
updated 15 months ago by
James W. MacDonald
66k • written 15 months ago by
Colin
• 0
0
votes
5
replies
2.4k
views
Is biomaRt down?
biomart
updated 15 months ago by
Xinling
• 0 • written 5.4 years ago by
ben.run974
• 0
0
votes
4
replies
1.0k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2
biomaRt
R
16 months ago
Dr.
• 0
0
votes
0
replies
751
views
BiomaRt - Problem to access homolog lists
biomaRt
ensembldb
16 months ago
ginie.dub
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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