Showing : biomaRT • reset
4
votes
9
replies
1.6k
views
biomaRt rnorvegicus_gene_ensembl not available anymore
Rattus_norvegicus biomaRt
updated 19 days ago by 67k • written 9 weeks ago by ▴ 20
0
votes
0
replies
229
views
News: Ensembl 113 has been released
ensembl ensembldb mart biomaRt
11 weeks ago Ensembl_Jorge • 0
0
votes
1
reply
312
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 3 months ago by ★ 6.6k • written 3 months ago by • 0
2
votes
2
replies
1.3k
views
Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
3 months ago 2044291597 • 0
1
vote
3
replies
1.0k
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 4 months ago by 67k • written 11 months ago by ▴ 10
1
vote
4
replies
874
views
BiomaRt Possible Ensembl SSL connectivity problems detected.
PureCN biomaRt
updated 8 weeks ago by • 0 • written 4 months ago by • 0
1
vote
4
replies
727
views
How to Query Only SNPs from the biomaRt Variation Database
biomaRt
5 months ago • updated 4 months ago kschecht • 0
2
votes
8
replies
1.5k
views
biomaRt getLDS error
biomaRt
5 months ago mark.dunning ▴ 20
1
vote
2
replies
975
views
Issues with retrieving mouse SNP dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
6 months ago Svitlana ▴ 10
0
votes
0
replies
330
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
6 months ago Reese • 0
0
votes
2
replies
542
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
7 months ago landenshanie ▴ 40
0
votes
0
replies
295
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
7 months ago Abiologist • 0
1
vote
0
replies
452
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
7 months ago Aleena ▴ 30
1
vote
3
replies
553
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 8 months ago by 67k • written 8 months ago by ▴ 30
2
votes
2
replies
818
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 8 months ago by 67k • written 8 months ago by • 0
0
votes
1
reply
459
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 9 months ago by 67k • written 9 months ago by • 0
0
votes
1
reply
1.0k
views
error in mapIds function
mapIds biomaRt
updated 10 months ago by 700 • written 10 months ago by • 0
0
votes
2
replies
1.1k
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
10 months ago eefernan5 • 0
3
votes
3
replies
12k
views
How to find rsID with biomaRt in R
biomaRt
updated 11 months ago by 67k • written 3.8 years ago by ▴ 10
0
votes
1
reply
453
views
biomaRt issue
biomaRt
updated 11 months ago by ★ 6.6k • written 11 months ago by • 0
1
vote
5
replies
1.4k
views
BiomaRt download data error
biomaRt
updated 11 months ago by ★ 6.6k • written 11 months ago by • 0
6
votes
9
replies
2.1k
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 11 months ago by • 0 • written 11 months ago by • 0
1
vote
1
reply
1.4k
views
Error with biomaRt
biomaRt
updated 11 months ago by ★ 6.6k • written 11 months ago by • 0
4
votes
2
replies
854
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 11 months ago by ★ 4.1k • written 11 months ago by • 0
2
votes
2
replies
1.1k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
11 months ago bd2000 ▴ 30
1
vote
0
replies
464
views
News: Ensembl 111 has been released
Ensembl biomaRt
11 months ago Benjamin ▴ 30
0
votes
2
replies
837
views
Problem with loading ensembl version 105.
biomaRt
12 months ago RC • 0
0
votes
1
reply
1.4k
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 13 months ago by 67k • written 13 months ago by • 0
0
votes
3
replies
1.0k
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 13 months ago by ★ 3.4k • written 13 months ago by ▴ 30
4
votes
12
replies
1.6k
views
Ensembl down???
biomaRt
13 months ago bas_work ▴ 30
3
votes
2
replies
740
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
13 months ago henrydionne ▴ 10
1
vote
2
replies
1.5k
views
How to find stop codons for a list of genes
stopcodon biomaRt
13 months ago Marek Gierlinski ▴ 30
0
votes
10
replies
1.3k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
13 months ago • updated 10 months ago ScafioRuo • 0
12
votes
10
replies
13k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 9 months ago by • 0 • written 14 months ago by ▴ 20
0
votes
3
replies
799
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 14 months ago by 52k • written 14 months ago by • 0
1
vote
4
replies
1.0k
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
15 months ago andrew.b.kleist ▴ 10
7
votes
6
replies
6.3k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 15 months ago by 700 • written 2.4 years ago by ▴ 20
0
votes
2
replies
692
views
Biomart - upstream region of 'coding'
biomaRt
updated 16 months ago by ★ 6.6k • written 16 months ago by ▴ 20
0
votes
0
replies
611
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
16 months ago ali.oghabian • 0
1
vote
5
replies
880
views
Errors with makeTxDbFromBiomart
biomaRt
updated 16 months ago by 67k • written 16 months ago by ▴ 10
3
votes
2
replies
1.9k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 16 months ago by ★ 4.1k • written 16 months ago by ▴ 10
0
votes
3
replies
1.2k
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 17 months ago by 16k • written 17 months ago by • 0
1
vote
2
replies
995
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
17 months ago Miguel • 0
0
votes
1
reply
869
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 17 months ago by 67k • written 17 months ago by • 0
0
votes
1
reply
2.5k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 17 months ago by 43k • written 17 months ago by ▴ 30
0
votes
1
reply
1.2k
views
multiple filters in biomaRt
biomaRt
updated 19 months ago by ▴ 10 • written 19 months ago by • 0
2
votes
4
replies
1.4k
views
Use with_go along with other filters in getBM function
Annotation biomaRt
19 months ago RuBBiT0 ▴ 10
1
vote
2
replies
1.3k
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 19 months ago by ★ 6.6k • written 19 months ago by • 0
0
votes
3
replies
826
views
BioMart Error message when pulling sequences
biomaRt bioma
updated 20 months ago by ★ 6.6k • written 20 months ago by • 0
0
votes
3
replies
2.2k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 20 months ago by ▴ 70
50 results • Page 1 of 1
Recent ...
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Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k
Sorry, I had forgotten estimateGLMDisp() produces weights as well as NB dispersions. The weights from estimatGLMRobustDisp() were intended …
Answer: Mean variance curve troubleshoot filtering by Gordon Smyth 52k
You could use `filterByExpr()`, as recommended by Law et al (2018) and in the limma and edgeR case studies. However, the main problem wi…
Comment: How do I fix an odd voom plot in a combined dataset? by Gordon Smyth 52k
The fact that you have partial NA coefficients indicates that your merged dataset consists in good part of NAs for a very large number of g…
Comment: How do I fix an odd voom plot in a combined dataset? by 1sunmic2 • 0
Thanks for responding! I did change the code slightly: dge1 <- DGEList(counts = combined_data_counts) keep <- rowSums(cpm(dge1)…
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0
The estimateGLMRobustDisp() function seems to have an effect on glmQLFit(), even in edgeR 4 (4.4.1). If I use estimateGLMRobustDisp(), like…
Votes
Answer: How do I fix an odd voom plot in a combined dataset?
Answer: How do I fix an odd voom plot in a combined dataset?
Comment: How do I fix an odd voom plot in a combined dataset?
C: How does edgeR cpm function calculate log(CPM) values?
C: How does edgeR cpm function calculate log(CPM) values?
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