Showing : BiomaRt • reset
1
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149
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News: Upcoming Ensembl API and data access changes - new blog post available
ensembl mart biomaRt ensembldb
13 days ago Ensembl_Jorge ▴ 10
0
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1
reply
329
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Extract snp information from genomic regions with biomaRt -> "oaries_snp"
biomaRt
updated 27 days ago by ★ 4.0k • written 3 months ago by • 0
5
votes
3
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429
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Issues with downloading biomaRt - SeqInfo and S4 Vectors
S4Vectors biomaRt Seqinfo
updated 5 weeks ago by 68k • written 5 weeks ago by ▴ 10
0
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1
reply
222
views
News: Ensembl 115 has been released!
ensembl ensembldb biomaRt
written 3 months ago by ▴ 10
1
vote
3
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1.4k
views
News: Ensembl 114 / Ensembl Genomes 61 has been released!
biomaRt ensembldb
written 7 months ago by ▴ 30
1
vote
1
reply
680
views
Biomart server error
biomaRt BioMartGOGeneSets
updated 6 months ago by 68k • written 6 months ago by • 0
0
votes
3
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859
views
getBM from biomaRt inconsistencies found with .gtf files across multiple species
.gtf biomaRt Ensembl
updated 8 months ago by ★ 6.6k • written 8 months ago by ▴ 20
0
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4
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2.4k
views
Ensembl site unresponsive via biomaRt
biomaRt
updated 7 months ago by • 0 • written 8 months ago by • 0
3
votes
5
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2.1k
views
Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
limma edgeR biomaRt
updated 11 months ago by 68k • written 11 months ago by ▴ 10
0
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2
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1.7k
views
Error using useMart or useEnsembl
biomaRt
updated 11 months ago by 68k • written 11 months ago by • 0
0
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4
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1.8k
views
Biomart and ensembl not working?
ensembldb biomaRt
updated 11 months ago by 68k • written 11 months ago by • 0
3
votes
9
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2.0k
views
Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) returning drastically different numbers of transcripts
AnnotationDbi EnsDb.Mmusculus.v79 biomaRt org.Mm.eg.db
updated 10 months ago by • 0 • written 11 months ago by • 0
4
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9
replies
3.0k
views
biomaRt rnorvegicus_gene_ensembl not available anymore
Rattus_norvegicus biomaRt
updated 12 months ago by 68k • written 13 months ago by ▴ 20
0
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0
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982
views
News: Ensembl 113 has been released
ensembl ensembldb mart biomaRt
14 months ago Ensembl_Jorge ▴ 10
0
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1
reply
831
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 14 months ago by ★ 6.6k • written 14 months ago by • 0
2
votes
2
replies
1.7k
views
Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
14 months ago 2044291597 • 0
1
vote
3
replies
1.9k
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 15 months ago by 68k • written 22 months ago by ▴ 10
1
vote
4
replies
1.9k
views
BiomaRt Possible Ensembl SSL connectivity problems detected.
PureCN biomaRt
updated 13 months ago by • 0 • written 15 months ago by • 0
1
vote
4
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1.5k
views
How to Query Only SNPs from the biomaRt Variation Database
biomaRt
16 months ago kschecht • 0
2
votes
8
replies
3.8k
views
biomaRt getLDS error
biomaRt
16 months ago mark.dunning ▴ 20
1
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2
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1.6k
views
Issues with retrieving mouse SNP dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
18 months ago • updated 17 months ago Svitlana ▴ 10
0
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0
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633
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
18 months ago Reese • 0
0
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2
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1.1k
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
19 months ago landenshanie ▴ 40
0
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0
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569
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
19 months ago Abiologist • 0
1
vote
0
replies
1.0k
views
News: Ensembl 112 has been released.
ensembldb biomaRt ensemblrelease
19 months ago Aleena_Ensembl ▴ 30
1
vote
3
replies
968
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 20 months ago by 68k • written 20 months ago by ▴ 30
2
votes
2
replies
1.6k
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 20 months ago by 68k • written 20 months ago by • 0
0
votes
1
reply
857
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 20 months ago by 68k • written 20 months ago by • 0
0
votes
1
reply
1.9k
views
error in mapIds function
mapIds biomaRt
updated 21 months ago by 700 • written 22 months ago by • 0
0
votes
2
replies
1.5k
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
22 months ago eefernan5 • 0
3
votes
3
replies
16k
views
How to find rsID with biomaRt in R
biomaRt
updated 22 months ago by 68k • written 4.8 years ago by ▴ 10
0
votes
1
reply
708
views
biomaRt issue
biomaRt
updated 22 months ago by ★ 6.6k • written 22 months ago by • 0
1
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5
replies
2.3k
views
BiomaRt download data error
biomaRt
updated 22 months ago by ★ 6.6k • written 22 months ago by • 0
6
votes
9
replies
4.2k
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 22 months ago by • 0 • written 22 months ago by • 0
1
vote
1
reply
2.2k
views
Error with biomaRt
biomaRt
updated 23 months ago by ★ 6.6k • written 23 months ago by • 0
4
votes
2
replies
1.4k
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 23 months ago by ★ 4.1k • written 23 months ago by • 0
2
votes
2
replies
1.6k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
23 months ago bd2000 ▴ 30
1
vote
0
replies
799
views
News: Ensembl 111 has been released
Ensembl biomaRt
23 months ago Benjamin ▴ 30
0
votes
2
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1.2k
views
Problem with loading ensembl version 105.
biomaRt
24 months ago RC • 0
0
votes
1
reply
2.2k
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
0
votes
3
replies
1.9k
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 2.0 years ago by ★ 3.4k • written 2.0 years ago by ▴ 30
4
votes
12
replies
2.5k
views
Ensembl down???
biomaRt
2.1 years ago • updated 2.0 years ago bas_work ▴ 30
3
votes
2
replies
1.2k
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
2.1 years ago henrydionne ▴ 10
1
vote
2
replies
2.5k
views
How to find stop codons for a list of genes
stopcodon biomaRt
2.1 years ago Marek Gierlinski ▴ 30
0
votes
10
replies
1.9k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
2.1 years ago • updated 21 months ago ScafioRuo • 0
12
votes
10
replies
16k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 21 months ago by • 0 • written 2.1 years ago by ▴ 20
0
votes
3
replies
1.2k
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 2.1 years ago by 53k • written 2.1 years ago by • 0
1
vote
4
replies
1.5k
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
2.2 years ago andrew.b.kleist ▴ 10
7
votes
6
replies
9.1k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 2.2 years ago by 700 • written 3.3 years ago by ▴ 20
0
votes
2
replies
989
views
Biomart - upstream region of 'coding'
biomaRt
updated 2.3 years ago by ★ 6.6k • written 2.3 years ago by ▴ 20
1,083 results • Page 1 of 22
Recent ...
Replies
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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