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Showing :
biomaRT
•
reset
2
votes
4
replies
313
views
Converting Probe IDs to HGNC symbols
Annotation
biomaRt
GEOquery
written 6 weeks ago by
Manav
▴ 10
0
votes
5
replies
3.1k
views
Ensembl site unresponsive via biomaRt
biomaRt
written 10 months ago by
hebda
• 0
1
vote
2
replies
487
views
News:
Upcoming Ensembl API and data access changes - new blog post available
ensembl
mart
biomaRt
ensembldb
written 10 weeks ago by
Ensembl_Jorge
▴ 10
0
votes
1
reply
433
views
Extract snp information from genomic regions with biomaRt -> "oaries_snp"
biomaRt
updated 12 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Jesus
• 0
5
votes
3
replies
709
views
Issues with downloading biomaRt - SeqInfo and S4 Vectors
S4Vectors
biomaRt
Seqinfo
updated 3 months ago by
James W. MacDonald
68k • written 3 months ago by
mgray20
▴ 10
0
votes
1
reply
439
views
News:
Ensembl 115 has been released!
ensembl
ensembldb
biomaRt
written 5 months ago by
Ensembl_Jorge
▴ 10
1
vote
3
replies
1.6k
views
News:
Ensembl 114 / Ensembl Genomes 61 has been released!
biomaRt
ensembldb
written 9 months ago by
Aleena_Ensembl
▴ 30
1
vote
1
reply
736
views
Biomart server error
biomaRt
BioMartGOGeneSets
updated 8 months ago by
James W. MacDonald
68k • written 8 months ago by
tarek.mohamed
• 0
0
votes
3
replies
967
views
getBM from biomaRt inconsistencies found with .gtf files across multiple species
.gtf
biomaRt
Ensembl
updated 10 months ago by
Mike Smith
★ 6.6k • written 10 months ago by
Benjamin
▴ 20
3
votes
5
replies
2.5k
views
Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
limma
edgeR
biomaRt
updated 13 months ago by
James W. MacDonald
68k • written 13 months ago by
Jonathan
▴ 10
0
votes
2
replies
2.2k
views
Error using useMart or useEnsembl
biomaRt
updated 13 months ago by
James W. MacDonald
68k • written 13 months ago by
rayanelkholdi
• 0
0
votes
4
replies
2.4k
views
Biomart and ensembl not working?
ensembldb
biomaRt
updated 13 months ago by
James W. MacDonald
68k • written 13 months ago by
Zuzer
• 0
3
votes
9
replies
2.7k
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 12 months ago by
franknappi14
• 0 • written 13 months ago by
Nicholas
• 0
4
votes
9
replies
3.3k
views
biomaRt rnorvegicus_gene_ensembl not available anymore
Rattus_norvegicus
biomaRt
updated 14 months ago by
James W. MacDonald
68k • written 15 months ago by
Benjamin
▴ 20
0
votes
0
replies
1.2k
views
News:
Ensembl 113 has been released
ensembl
ensembldb
mart
biomaRt
16 months ago
Ensembl_Jorge
▴ 10
0
votes
1
reply
963
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 16 months ago by
Mike Smith
★ 6.6k • written 16 months ago by
Abiologist
• 0
2
votes
2
replies
1.9k
views
Issues with retrieving Zea mays genes dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
16 months ago
2044291597
• 0
1
vote
3
replies
2.1k
views
502 error biomaRt getLDS()
ensembldb
biomaRt
updated 17 months ago by
James W. MacDonald
68k • written 2.0 years ago by
Pez
▴ 10
1
vote
4
replies
2.1k
views
BiomaRt Possible Ensembl SSL connectivity problems detected.
PureCN
biomaRt
updated 15 months ago by
Adam
• 0 • written 17 months ago by
varga.luca
• 0
1
vote
4
replies
1.7k
views
How to Query Only SNPs from the biomaRt Variation Database
biomaRt
18 months ago
kschecht
• 0
2
votes
8
replies
4.2k
views
biomaRt getLDS error
biomaRt
18 months ago
mark.dunning
▴ 20
1
vote
2
replies
1.6k
views
Issues with retrieving mouse SNP dataset: biomaRt error: looks like we're connecting to incompatible version of BioMart.
biomaRt
20 months ago • updated 19 months ago
Svitlana
▴ 10
0
votes
0
replies
691
views
BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
biomaRt
20 months ago
Reese
• 0
0
votes
2
replies
1.1k
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db
biomaRt
21 months ago
landenshanie
▴ 40
0
votes
0
replies
644
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
21 months ago
Abiologist
• 0
1
vote
0
replies
1.2k
views
News:
Ensembl 112 has been released.
ensembldb
biomaRt
ensemblrelease
21 months ago
Aleena_Ensembl
▴ 30
1
vote
3
replies
1.0k
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 22 months ago by
James W. MacDonald
68k • written 22 months ago by
bas_work
▴ 30
2
votes
2
replies
1.9k
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 22 months ago by
James W. MacDonald
68k • written 22 months ago by
sansan
• 0
0
votes
1
reply
981
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 22 months ago by
James W. MacDonald
68k • written 22 months ago by
Reeya
• 0
0
votes
1
reply
2.0k
views
error in mapIds function
mapIds
biomaRt
updated 23 months ago by
Marcel Ramos
700 • written 24 months ago by
Regina
• 0
0
votes
2
replies
1.6k
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
2.0 years ago
eefernan5
• 0
3
votes
3
replies
17k
views
How to find rsID with biomaRt in R
biomaRt
updated 2.0 years ago by
James W. MacDonald
68k • written 5.0 years ago by
Federica
▴ 10
0
votes
1
reply
780
views
biomaRt issue
biomaRt
updated 2.0 years ago by
Mike Smith
★ 6.6k • written 2.0 years ago by
Fariz
• 0
1
vote
5
replies
2.4k
views
BiomaRt download data error
biomaRt
updated 2.0 years ago by
Mike Smith
★ 6.6k • written 2.0 years ago by
Max Bone
• 0
6
votes
9
replies
4.5k
views
biomaRt has encountered an unknown server error.
biomaRt
host
useEnsembl
updated 2.0 years ago by
alexander3
• 0 • written 2.0 years ago by
Amparo
• 0
1
vote
1
reply
2.3k
views
Error with biomaRt
biomaRt
updated 2.1 years ago by
Mike Smith
★ 6.6k • written 2.1 years ago by
goldenboy
• 0
4
votes
2
replies
1.5k
views
Enrichement with clusterProfiler and biomart
biomaRt
clusterProfiler
Zea_mays
updated 2.1 years ago by
Guido Hooiveld
★ 4.1k • written 2.1 years ago by
sansan
• 0
2
votes
2
replies
1.7k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
2.1 years ago
bd2000
▴ 30
1
vote
0
replies
861
views
News:
Ensembl 111 has been released
Ensembl
biomaRt
2.1 years ago
Benjamin
▴ 30
0
votes
2
replies
1.4k
views
Problem with loading ensembl version 105.
biomaRt
2.1 years ago
RC
• 0
0
votes
1
reply
2.3k
views
biomaRt_getBM_Failed to collect lazy table
getBM
biomaRt
updated 2.2 years ago by
James W. MacDonald
68k • written 2.2 years ago by
ai.yaku
• 0
0
votes
3
replies
2.2k
views
Obtaining rsIDs with ENSG and variant ID information
rsid
biomaRt
updated 2.2 years ago by
Robert Castelo
★ 3.4k • written 2.2 years ago by
bd2000
▴ 30
4
votes
12
replies
2.8k
views
Ensembl down???
biomaRt
2.2 years ago
bas_work
▴ 30
3
votes
2
replies
1.3k
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl
biomaRt
2.2 years ago
henrydionne
▴ 10
1
vote
2
replies
2.9k
views
How to find stop codons for a list of genes
stopcodon
biomaRt
2.2 years ago
Marek Gierlinski
▴ 30
0
votes
10
replies
2.1k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R
BioMart
biomaRt
2.2 years ago • updated 23 months ago
ScafioRuo
• 0
12
votes
10
replies
17k
views
biomaRt not working - lazy table error
error
lazy
R
biomaRt
table
updated 23 months ago by
juo5
• 0 • written 2.3 years ago by
Abhishek
▴ 20
0
votes
3
replies
1.3k
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 2.3 years ago by
Gordon Smyth
53k • written 2.3 years ago by
Marilyn
• 0
1
vote
4
replies
1.6k
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
2.4 years ago
andrew.b.kleist
▴ 10
7
votes
6
replies
9.8k
views
Conversion of UniProt to Ensembl
biomaRt
ensembldb
UniProt.ws
updated 2.3 years ago by
Marcel Ramos
700 • written 3.5 years ago by
Recep
▴ 20
1,084 results • Page
1 of 22
Recent ...
Replies
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
by
Gordon Smyth
53k
I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…
Answer: Which preprocessing steps are needed before running limpa?
by
Gordon Smyth
53k
Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…
Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name
by
Korneel
• 0
Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…
Comment: Pathway abundance data from Curatedmetagenomics
by
yesquokkan
• 0
Hello, I was also wondering about the same issue. Did you figure it out?
Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2
by
colinmccornack
• 0
FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…
Votes
Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
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