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 • 0 • written 10 months ago by ▴ 50
21
votes
24
replies
11k
views
Problem with biomart's listMarts function
biomart bug
updated 6.8 years ago by ▴ 470 • written 7.2 years ago by ★ 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 ★ 5.9k • written 2.3 years ago by ▴ 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 ▴ 140 • written 7.2 years ago by ▴ 650
13
votes
8
replies
14k
views
how to use biomaRt with ensembl build 37
biomaRt ensembl GRCh37
updated 8.3 years ago by ▴ 790 • written 8.3 years ago by ▴ 90
11
votes
5
replies
3.3k
views
Scan error using biomart with version option
biomart
updated 5.1 years ago by ★ 5.9k • written 5.1 years ago by ▴ 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 ▴ 380 • written 7.7 years ago by ▴ 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 ★ 5.9k • written 5.8 years ago by ★ 1.5k
8
votes
8
replies
2.0k
views
biomaRt: drerio_gene_ensembl dataset missing
biomart ensembl ripseeker
updated 5.2 years ago by ★ 5.9k • written 5.2 years ago by ▴ 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 25k • written 3.4 years ago by ▴ 10
8
votes
10
replies
1.0k
views
Genes listed in GO categories
goseq biomart
updated 4.6 years ago by 47k • written 4.7 years ago by • 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 ★ 5.9k • written 5.0 years ago by ▴ 30
6
votes
7
replies
1.4k
views
Inconsistencies in biomart results
biomart
updated 5.8 years ago by ★ 5.9k • written 6.5 years ago by 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 62k • written 3.8 years ago by ▴ 80
6
votes
5
replies
1.8k
views
biomaRt returns all NAs for hgnc_symbol
biomaRt
updated 3.8 years ago by ★ 5.9k • written 3.8 years ago by ▴ 80
6
votes
7
replies
1.4k
views
Requesting flank sequences (BioMart::Exception)
biomart plants_mart
updated 23 months ago by ▴ 20 • written 6.7 years ago by • 0
6
votes
12
replies
4.1k
views
Error in getBM of biomaRt package
biomaRt getBM
updated 5.8 years ago by • 0 • written 6.0 years ago by ▴ 110
6
votes
6
replies
1.4k
views
GenomicFeatures makeTxDbFromBiomart fails with "unkown species" error
biomart maketxdbfrombiomart genomicfeatures
updated 6.0 years ago by 62k • written 6.0 years ago by ▴ 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 ▴ 360 • written 9.2 years ago by ▴ 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 ★ 5.9k • written 5.2 years ago by ▴ 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 ▴ 160 • written 5.2 years ago by ▴ 20
6
votes
7
replies
4.7k
views
BiomaRt workaround when Biomart server closed
biomart
updated 7.2 years ago by • 0 • written 7.2 years ago by ▴ 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 ▴ 70 • written 6.7 years ago by ▴ 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 • 0 • written 20 months ago by ▴ 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 • 0 • written 9 months ago by ▴ 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 ▴ 380 • written 7.6 years ago by ▴ 790
5
votes
11
replies
1.0k
views
an error in BioMart regarding gene annotations
biomart AnnotationDbi
updated 4.6 years ago by ▴ 50 • written 4.6 years ago by ▴ 660
5
votes
4
replies
1.3k
views
Biomart: Error in getLDS
Biomart
updated 6.2 years ago by 62k • written 6.2 years ago by ▴ 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 ★ 5.9k • written 2.5 years ago by • 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 21k • written 8.3 years ago by ▴ 10
5
votes
16
replies
2.6k
views
biomaRt error in getBM for hsapiens_gene_ensembl
biomart
updated 5.2 years ago by • 0 • written 5.2 years ago by ▴ 20
5
votes
7
replies
2.5k
views
Biomart getLDS error
biomart getLDS orthlog
updated 6.3 years ago by ▴ 790 • written 6.3 years ago by • 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 62k • written 8.3 years ago by ▴ 20
5
votes
6
replies
1.7k
views
Reactome pathway names from IDs?
biomart reactome reactome.db id
updated 7.2 years ago by 62k • written 7.2 years ago by ▴ 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 ★ 5.9k • written 6.2 years ago by ▴ 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 ▴ 20 • written 6.9 years ago by ▴ 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 62k • written 5.4 years ago by ▴ 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 62k • written 7.3 years ago by ▴ 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 ★ 5.9k • written 3.7 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
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 ▴ 40
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…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R by Gordon Smyth 47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user) by lalanis1 • 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma by Gordon Smyth 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…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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