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Showing :
biomart
•
reset
0
votes
2
replies
148
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db
biomaRt
8 days ago • updated 6 days ago
landenshanie
▴ 40
0
votes
0
replies
64
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
11 days ago • updated 10 days ago
Abiologist
• 0
1
vote
0
replies
93
views
News:
Ensembl 112 has been released.
ensembldb
biomaRt
ensemblrelease
15 days ago
Aleena
▴ 30
1
vote
3
replies
221
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 5 weeks ago by
James W. MacDonald
66k • written 5 weeks ago by
bas_work
▴ 30
2
votes
2
replies
253
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 5 weeks ago by
James W. MacDonald
66k • written 5 weeks ago by
sansan
• 0
0
votes
1
reply
179
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 8 weeks ago by
James W. MacDonald
66k • written 8 weeks ago by
Reeya
• 0
0
votes
2
replies
712
views
biomart not ound some prevous release
biomart
rnaseq
written 5.3 years ago by
jarod_v6@libero.it
▴ 40
1
vote
4
replies
1.2k
views
Issue with Biomart- cannot access ensembl
biomaRT
updated 9 weeks ago by
James W. MacDonald
66k • written 4.1 years ago by
RJW63
• 0
11
votes
10
replies
7.7k
views
biomaRt not working - lazy table error
error
lazy
R
biomaRt
table
updated 9 weeks ago by
juo5
• 0 • written 7 months ago by
Abhishek
▴ 20
0
votes
10
replies
869
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R
BioMart
biomaRt
6 months ago • updated 12 weeks ago
ScafioRuo
• 0
0
votes
1
reply
345
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
510
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
3 months ago
eefernan5
• 0
1
vote
1
reply
254
views
502 error biomaRt getLDS()
ensembldb
biomaRt
updated 3 months ago by
Robin
• 0 • written 3 months ago by
Pez
▴ 10
3
votes
3
replies
9.7k
views
How to find rsID with biomaRt in R
biomaRt
updated 3 months ago by
James W. MacDonald
66k • written 3.2 years ago by
Federica
▴ 10
0
votes
1
reply
243
views
biomaRt issue
biomaRt
updated 3 months ago by
Mike Smith
★ 6.5k • written 3 months ago by
Fariz
• 0
1
vote
5
replies
527
views
BiomaRt download data error
biomaRt
updated 3 months ago by
Mike Smith
★ 6.5k • written 3 months ago by
Max Bone
• 0
6
votes
9
replies
924
views
biomaRt has encountered an unknown server error.
biomaRt
host
useEnsembl
updated 3 months ago by
alexander3
• 0 • written 4 months ago by
Amparo
• 0
1
vote
1
reply
513
views
Error with biomaRt
biomaRt
updated 4 months ago by
Mike Smith
★ 6.5k • written 4 months ago by
goldenboy
• 0
4
votes
2
replies
425
views
Enrichement with clusterProfiler and biomart
biomaRt
clusterProfiler
Zea_mays
updated 4 months ago by
Guido Hooiveld
★ 4.0k • written 4 months ago by
sansan
• 0
2
votes
2
replies
702
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
4 months ago
bd2000
▴ 30
1
vote
0
replies
254
views
News:
Ensembl 111 has been released
Ensembl
biomaRt
4 months ago
Benjamin
▴ 30
0
votes
2
replies
436
views
Problem with loading ensembl version 105.
biomaRt
5 months ago
RC
• 0
0
votes
1
reply
793
views
biomaRt_getBM_Failed to collect lazy table
getBM
biomaRt
updated 5 months ago by
James W. MacDonald
66k • written 5 months ago by
ai.yaku
• 0
4
votes
12
replies
1.0k
views
Ensembl down???
biomaRt
6 months ago • updated 5 months ago
bas_work
▴ 30
0
votes
3
replies
461
views
Obtaining rsIDs with ENSG and variant ID information
rsid
biomaRt
updated 5 months ago by
Robert Castelo
★ 3.3k • written 6 months ago by
bd2000
▴ 30
3
votes
2
replies
469
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl
biomaRt
6 months ago
henrydionne
▴ 10
0
votes
1
reply
1.0k
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
Lillian
• 0
1
vote
2
replies
740
views
How to find stop codons for a list of genes
stopcodon
biomaRt
6 months ago
Marek Gierlinski
▴ 30
1
vote
7
replies
4.6k
views
Problems Installing biomaRt
biomaRt
updated 6 months ago by
James W. MacDonald
66k • written 2.1 years ago by
ksci
▴ 20
22
votes
15
replies
7.6k
views
biomaRt error unable to fix: need help troubleshooting
biomaRt
RNASeqData
R
updated 6 months ago by
Marie
▴ 10 • written 2.1 years ago by
Dina
▴ 50
0
votes
3
replies
509
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 7 months ago by
Gordon Smyth
50k • written 7 months ago by
Marilyn
• 0
0
votes
3
replies
1.5k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 13 months ago by
nhaus
▴ 40
7
votes
5
replies
7.2k
views
biomaRt server error, and mirrors do not help
ensembl
biomaRt
R
updated 7 months ago by
Ke
• 0 • written 2.1 years ago by
kieran.short
▴ 40
7
votes
6
replies
4.4k
views
Conversion of UniProt to Ensembl
biomaRt
ensembldb
UniProt.ws
updated 7 months ago by
Marcel Ramos
700 • written 21 months ago by
Recep
▴ 20
1
vote
4
replies
719
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
0
votes
2
replies
396
views
Biomart - upstream region of 'coding'
biomaRt
updated 8 months ago by
Mike Smith
★ 6.5k • written 8 months ago by
andrebolerbarros
▴ 20
0
votes
0
replies
405
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
9 months ago
ali.oghabian
• 0
1
vote
5
replies
642
views
Errors with makeTxDbFromBiomart
biomaRt
updated 9 months ago by
James W. MacDonald
66k • written 9 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 9 months ago by
Guido Hooiveld
★ 4.0k • written 9 months ago by
Milan
▴ 10
0
votes
3
replies
1.0k
views
Problem installing biomaRt on mac
biomaRt
mac
updated 9 months ago by
15753563659
▴ 60 • written 18 months ago by
alfonsosaera
• 0
0
votes
3
replies
831
views
Error with makeTxDbFromBiomart
DEXSeq
biomaRt
updated 9 months ago by
Hervé Pagès
16k • written 10 months ago by
anavmar1
• 0
1
vote
2
replies
661
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
1.6k
views
News:
News:Ensembl 110 has been released
ensembldb
biomaRt
updated 10 months ago by
Michael Love
42k • written 10 months ago by
Benjamin
▴ 30
0
votes
1
reply
646
views
Trouble using biomaRt to pull pathway genes from GO
GO
biomaRt
updated 10 months ago by
James W. MacDonald
66k • written 10 months ago by
cstorer
• 0
5
votes
4
replies
9.9k
views
Getting rs ids using chr coordinates | Biomart
SNP
rs id
Biomart
Chromosome
coordinates
updated 10 months ago by
James W. MacDonald
66k • written 3.8 years ago by
Mahan
• 0
0
votes
1
reply
862
views
multiple filters in biomaRt
biomaRt
updated 11 months ago by
RuBBiT0
▴ 10 • written 12 months ago by
Yijing
• 0
2
votes
4
replies
998
views
Use with_go along with other filters in getBM function
Annotation
biomaRt
12 months ago
RuBBiT0
▴ 10
1
vote
2
replies
835
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
4
votes
4
replies
1.8k
views
biomaRt error: database disk image is malformed
biomaRt
updated 12 months ago by
Emile
• 0 • written 2.6 years ago by
victorcampos1995
▴ 10
0
votes
3
replies
613
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
50 results • Page
1 of 1
Recent ...
Replies
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai
by
atan
• 0
Thank you! I ended up running it with a gtf on command line, partially because I couldn't figure out how to list multiple files in R for in…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai
by
atan
• 0
For some reason, that's still not working for me on command line. I ended up figuring out another way around, though, by converting the g…
Answer: LRT, pairwise comparisons and p-value adjustment
by
James W. MacDonald
66k
The convention is to adjust only within comparisons. But as the analyst, that's your call.
Comment: Counter-directional LFC shrinkage
by
ennui
• 0
Thank you for your response. The `ashr` shrinkage indeed preserves more of the original ranks in the data. So if I understand correctly, L…
Comment: Counter-directional LFC shrinkage
by
ennui
• 0
I agree it looks offset (and weird). The data is from NGS, not RNAseq, but we still want to see relative abundance between conditions - I t…
Votes
Reduce the number of nodes appear in the cnetplot of clusterprofiler
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
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★ 1.5k
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to
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3.9k
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Robert Castelo
★ 3.3k
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