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Showing :
biomart
•
reset
22
votes
14
replies
3.8k
views
biomaRt error unable to fix: need help troubleshooting
biomaRt
RNASeqData
R
updated 9 months ago by
Neri0304
• 0 • written 10 months ago by
Dina
▴ 50
21
votes
24
replies
11k
views
Problem with biomart's listMarts function
biomart
bug
updated 6.8 years ago by
Paul Shannon
▴ 470 • written 7.2 years ago by
Johannes Rainer
★ 2.0k
21
votes
34
replies
6.0k
views
Biomart error when updating to R 4.0.2
Biomart
updated 2.3 years ago by
Mike Smith
★ 5.9k • written 2.3 years ago by
landenshanie
▴ 40
19
votes
4
replies
4.9k
views
biomaRt no longer works with proxy after upgrade
biomart
proxy
rcurl
updated 7.2 years ago by
hygine
▴ 140 • written 7.2 years ago by
enricoferrero
▴ 650
13
votes
8
replies
14k
views
how to use biomaRt with ensembl build 37
biomaRt
ensembl
GRCh37
updated 8.3 years ago by
Thomas Maurel
▴ 790 • written 8.3 years ago by
Pablo marin-garcia
▴ 90
11
votes
5
replies
3.3k
views
Scan error using biomart with version option
biomart
updated 5.1 years ago by
Mike Smith
★ 5.9k • written 5.1 years ago by
Chris Stubben
▴ 40
10
votes
8
replies
1.7k
views
Best alternative annotation package to BiomaRt
R
biomaRt
Ensembl
rnaseq
3.6 years ago
m93
▴ 10
9
votes
4
replies
4.1k
views
How to access Emsembl plants with biomaRt
biomart
7.2 years ago
naholi.alejandri
▴ 50
9
votes
1
reply
1.8k
views
News:
Ensembl release 80 is out!
biomart
Ensembl
zebrafish
Rat
1000 genomes phase 3
News
updated 7.7 years ago by
Sonali Arora
▴ 380 • written 7.7 years ago by
Thomas Maurel
▴ 790
9
votes
5
replies
5.2k
views
Error: This function only works when used with the ensembl BioMart.
biomart
error
7.2 years ago
anchel.gonzalez
• 0
9
votes
9
replies
3.1k
views
biomaRt error when connecting to host
biomart
host
connection
updated 5.8 years ago by
Mike Smith
★ 5.9k • written 5.8 years ago by
Assa Yeroslaviz
★ 1.5k
8
votes
8
replies
2.0k
views
biomaRt: drerio_gene_ensembl dataset missing
biomart
ensembl
ripseeker
updated 5.2 years ago by
Mike Smith
★ 5.9k • written 5.2 years ago by
António Miguel de Jesus Domingues
▴ 490
8
votes
6
replies
2.2k
views
Coding vs Noncoding Genes in Hit List
biomaRt
coding vs noncoding
high throughput
updated 3.4 years ago by
Martin Morgan
25k • written 3.4 years ago by
Steve Lowe
▴ 10
8
votes
10
replies
1.0k
views
Genes listed in GO categories
goseq
biomart
updated 4.6 years ago by
Gordon Smyth
47k • written 4.7 years ago by
frezende
• 0
7
votes
2
replies
5.3k
views
getBM error: The query to the BioMart webservice returned an invalid result
biomart
updated 5.0 years ago by
Mike Smith
★ 5.9k • written 5.0 years ago by
Gregulator
▴ 30
6
votes
7
replies
1.4k
views
Inconsistencies in biomart results
biomart
updated 5.8 years ago by
Mike Smith
★ 5.9k • written 6.5 years ago by
Laurent Gatto
1.6k
6
votes
5
replies
3.5k
views
biomaRt Ensembl gene ID to multiple HGNC symbol
ensembl
symbol
hgnc
biomart
updated 3.8 years ago by
James W. MacDonald
62k • written 3.8 years ago by
foehn
▴ 80
6
votes
5
replies
1.8k
views
biomaRt returns all NAs for hgnc_symbol
biomaRt
updated 3.8 years ago by
Mike Smith
★ 5.9k • written 3.8 years ago by
foehn
▴ 80
6
votes
7
replies
1.4k
views
Requesting flank sequences (BioMart::Exception)
biomart
plants_mart
updated 23 months ago by
lessismore
▴ 20 • written 6.7 years ago by
pbarros
• 0
6
votes
12
replies
4.1k
views
Error in getBM of biomaRt package
biomaRt
getBM
updated 5.8 years ago by
boris.steipe
• 0 • written 6.0 years ago by
rubi
▴ 110
6
votes
6
replies
1.4k
views
GenomicFeatures makeTxDbFromBiomart fails with "unkown species" error
biomart
maketxdbfrombiomart
genomicfeatures
updated 6.0 years ago by
James W. MacDonald
62k • written 6.0 years ago by
kaur.alasoo
▴ 30
6
votes
1
reply
2.7k
views
[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
Sequencing
Annotation
convert
biomaRt
ReportingTools
DESeq2
Sequencing
Annotation
convert
updated 8.1 years ago by
andrew.j.skelton73
▴ 360 • written 9.2 years ago by
Jason Hackney
▴ 160
6
votes
5
replies
6.9k
views
biomaRt: error using useDataset or useMart
software error
biomart
usemart
usedataset
updated 5.2 years ago by
Mike Smith
★ 5.9k • written 5.2 years ago by
lpsantamaria
▴ 40
6
votes
2
replies
2.5k
views
The query to the BioMart webservice returned an invalid result: the number of columns in the result table does not equal the number of attributes in …
biomart
number of columns in the result table does not equal the number of attributes in the query
updated 5.2 years ago by
thokall
▴ 160 • written 5.2 years ago by
ang
▴ 20
6
votes
7
replies
4.7k
views
BiomaRt workaround when Biomart server closed
biomart
updated 7.2 years ago by
Sarai.Mola
• 0 • written 7.2 years ago by
s.corley
▴ 30
6
votes
6
replies
1.2k
views
Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve gene symbols
biomaRt
annnotation
RNASeq
AnnotationDbi
20 months ago
svlachavas
▴ 800
6
votes
18
replies
2.5k
views
biomaRt - getBM - biomart= ENSEMBL_MART_FUNCGEN !!! NOT WORKING!!!
bioconductor
biomart
problem with connection
updated 6.7 years ago by
Dan Staines
▴ 70 • written 6.7 years ago by
juan-pablo.cerapio-arroyo
▴ 10
6
votes
1
reply
836
views
biomart R code cannot retrieve gene symbol
biomart
ensemblbiomart
ensemble mart
4.9 years ago
emmak
▴ 20
5
votes
5
replies
2.7k
views
BiomaRt connection error: Could not connect to mysql database ensembl_mart_104
biomaRt
connection
sql
updated 20 months ago by
Joan Miró
• 0 • written 20 months ago by
Anand
▴ 10
5
votes
3
replies
304
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt
ensembldb
ensembl
3 months ago • updated 26 days ago
jamie.gearing
▴ 60
5
votes
3
replies
2.6k
views
Please use the function 'listAttributes' to get valid attribute names
r
biomart
5.6 years ago
al14
• 0
5
votes
4
replies
2.5k
views
biomaRt server error, and mirrors do not help
ensembl
biomaRt
R
updated 11 weeks ago by
SE
• 0 • written 9 months ago by
kieran.short
▴ 30
5
votes
2
replies
2.0k
views
News:
Ensembl release 81 is out!
human
mouse
GRCh38
biomart
Ensembl
News
updated 7.6 years ago by
Sonali Arora
▴ 380 • written 7.6 years ago by
Thomas Maurel
▴ 790
5
votes
11
replies
1.0k
views
an error in BioMart regarding gene annotations
biomart
AnnotationDbi
updated 4.6 years ago by
daniel.vantwisk
▴ 50 • written 4.6 years ago by
Bogdan
▴ 660
5
votes
4
replies
1.3k
views
Biomart: Error in getLDS
Biomart
updated 6.2 years ago by
James W. MacDonald
62k • written 6.2 years ago by
Carsten
▴ 10
5
votes
11
replies
997
views
"associated_gene" attribute from biomaRt returns too few values - SNP(rsID dataset)
r
biomart
SNP
annotation
HUGO
updated 2.5 years ago by
Mike Smith
★ 5.9k • written 2.5 years ago by
aroso491
• 0
5
votes
19
replies
6.4k
views
biomaRt SNP (rs ID) -to-HGNC symbol mapping question
biomart
8.3 years ago
k.askland
▴ 20
5
votes
5
replies
1.5k
views
Metagenomic analysis: Aligning ChIPseq data on TSS
metagenomics
chipseq
biomart
shortread
convert
biomaRt
8.4 years ago
patrick.schordert
▴ 30
5
votes
5
replies
3.2k
views
SNP Function Information from biomaRt
biomart
snp
nonsynonymous
updated 8.3 years ago by
Sean Davis
21k • written 8.3 years ago by
Ting
▴ 10
5
votes
16
replies
2.6k
views
biomaRt error in getBM for hsapiens_gene_ensembl
biomart
updated 5.2 years ago by
romicakerketta
• 0 • written 5.2 years ago by
rbacher
▴ 20
5
votes
7
replies
2.5k
views
Biomart getLDS error
biomart
getLDS
orthlog
updated 6.3 years ago by
Thomas Maurel
▴ 790 • written 6.3 years ago by
Diwan
• 0
5
votes
5
replies
1.5k
views
News:
Ensembl 88 is out!
ensembl
ensembl mart
biomart
e!88
News
5.9 years ago
Thomas Maurel
▴ 790
5
votes
2
replies
9.1k
views
Probe to gene id conversion
annotate
biomart
probe to gene id
updated 8.3 years ago by
James W. MacDonald
62k • written 8.3 years ago by
rafi A
▴ 20
5
votes
6
replies
1.7k
views
Reactome pathway names from IDs?
biomart
reactome
reactome.db
id
updated 7.2 years ago by
James W. MacDonald
62k • written 7.2 years ago by
enricoferrero
▴ 650
5
votes
4
replies
2.2k
views
biomaRT GO-ID retreival showing different genes than AmiGO
biomart
go
updated 6.2 years ago by
Mike Smith
★ 5.9k • written 6.2 years ago by
snamjoshi87
▴ 40
4
votes
9
replies
2.2k
views
News:
Ensembl release 84 is out!
ensembl
mart
release84
biomart
ensembl release
News
updated 6.8 years ago by
arielpaulson
▴ 20 • written 6.9 years ago by
Thomas Maurel
▴ 790
4
votes
1
reply
1.3k
views
Retrieving all genes related a go term
go
R
annotationdbi
biomart
updated 5.4 years ago by
James W. MacDonald
62k • written 5.4 years ago by
Stane
▴ 40
4
votes
5
replies
1.7k
views
biomaRt error: Query ERROR: caught BioMart::Exception: non-BioMart die():
biomart
5.3 years ago
Georg Otto
▴ 120
4
votes
7
replies
2.1k
views
How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembly?
makeTxDbFromBiomart
genomicfeatures
txdb
biomart
updated 7.3 years ago by
James W. MacDonald
62k • written 7.3 years ago by
vinod.acear
▴ 50
4
votes
3
replies
2.5k
views
'biomaRt expected a character string of length 1' error with getBM and reseq mrna filer
biomart
updated 3.7 years ago by
Mike Smith
★ 5.9k • written 3.7 years ago by
laurenz.holcik
• 0
50 results • Page
1 of 1
Recent ...
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Comment: TCGA: clinical data and expression data
by
sharifnstu1203002m
• 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Jonathan Göke
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Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
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Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
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Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
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47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
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