Showing : ensembl • reset
2
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6
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2.9k
views
biomaRt Ensembl ID query returns NA in 'ensembl_gene_id', 'ensembl_transcript_id', etc.
biomart ensembl annotation
updated 8.4 years ago by ★ 6.6k • written 8.4 years ago by ▴ 30
6
votes
1
reply
9.3k
views
Finding orthologous human/mouse ENSEMBL IDs
human mouse ensembl annotationdbi homologue
8.5 years ago Keith Hughitt ▴ 180
3
votes
14
replies
4.9k
views
biomaRt - Error in getBM: The query to the BioMart webservice returned an invalid result
biomart error ensembl bioconductor ensembl mart
8.5 years ago daniel.carbajo • 0
1
vote
0
replies
1.5k
views
News: Ensembl 89 has been released
ensembl biomart ensemblbiomart ensembl89 News
8.5 years ago Thomas Maurel ▴ 800
0
votes
3
replies
1.5k
views
DESeq2 output with multiple Ensembl Gene Names per row, how to resolve?
rnaseq deseq2 ensembl
updated 8.6 years ago by 43k • written 8.6 years ago by • 0
2
votes
12
replies
3.8k
views
biomaRt does not return entrezgene id
bioconductor biomart entrez gene identifiers ensembl ensembl mart
updated 8.7 years ago by ▴ 800 • written 8.7 years ago by • 0
5
votes
5
replies
2.8k
views
News: Ensembl 88 is out!
ensembl ensembl mart biomart e!88 News
8.7 years ago Thomas Maurel ▴ 800
0
votes
0
replies
1.4k
views
News: Ensembl 87 is out!
ensembl ensemble mart ensembl mart biomart News
9.0 years ago amonida ▴ 20
1
vote
1
reply
1.6k
views
News: Ensembl release 86 is out!
ensembl biomart ensembl release ensembl mart News
9.2 years ago Thomas Maurel ▴ 800
0
votes
2
replies
2.4k
views
Gviz - adding ensembl gene annotation track
gviz ensembl
9.3 years ago just • 0
0
votes
5
replies
2.1k
views
Using mgeneSim with Ensembl ids
Ensembl GOsemsim GO semantic similarity
updated 9.3 years ago by ★ 1.2k • written 9.3 years ago by ▴ 10
1
vote
0
replies
1.6k
views
News: Ensembl release 85 is out!
ensembl biomart release85 ensembl release mart News
9.4 years ago Thomas Maurel ▴ 800
0
votes
5
replies
5.8k
views
Ensembl biomaRt connection errors
software error biomart ensembl
updated 9.5 years ago by ▴ 70 • written 9.5 years ago by • 0
1
vote
5
replies
3.8k
views
Ensembl bacteria not accessible from biomaRt
biomart ensembl
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 20
0
votes
1
reply
1.3k
views
Ensembl version from non-vertebrate biomaRt
biomart ensembl
updated 9.6 years ago by ▴ 70 • written 9.6 years ago by ▴ 20
4
votes
9
replies
3.9k
views
News: Ensembl release 84 is out!
ensembl mart release84 biomart ensembl release News
updated 9.6 years ago by ▴ 20 • written 9.8 years ago by ▴ 800
2
votes
2
replies
1.5k
views
goseq package: Is the package in sync with the most current Ensembl release?
goseq ensembl
updated 9.7 years ago by ★ 2.1k • written 9.7 years ago by ▴ 10
0
votes
0
replies
1.5k
views
Low yield mapping ensembl transcript ids to entrez gene ids in biomart
biomart ensembl ensemble mart entrez gene identifiers
9.8 years ago serpalma.v ▴ 60
4
votes
5
replies
2.2k
views
ChIPpeakAnno getAnnotation request fail
chippeakanno biomart ensembl
9.9 years ago igor ▴ 50
0
votes
0
replies
1.9k
views
News: Ensembl 83 is out!
ensemble mart ensembl biomart ensembl release News
10.0 years ago amonida ▴ 20
1
vote
2
replies
4.2k
views
Converting annotation from UCSC to Ensembl
ensembl ucsc annotation
updated 10.0 years ago by 68k • written 10.0 years ago by ▴ 110
0
votes
0
replies
1.9k
views
News: Ensembl GRCh37 release 82 - second data update
ensembl biomart News grch37 GRCh37
10.2 years ago amonida ▴ 20
0
votes
0
replies
1.5k
views
News: Ensembl release 82 is out!
biomart ensembl release82 variation mouse News
10.2 years ago Thomas Maurel ▴ 800
0
votes
3
replies
3.1k
views
biomaRt fails for M.musculus annotation, Ensembl version 80
biomart ensembl
updated 10.3 years ago by ▴ 20 • written 10.3 years ago by ▴ 80
0
votes
1
reply
2.1k
views
Problem with visualising empty tracks from ensembl
gviz ensembl
updated 10.3 years ago by ★ 1.6k • written 10.3 years ago by • 0
1
vote
2
replies
1.4k
views
Using Ensmbl rel 80, when rel 79 is supported by BioConductor
ensembl
updated 10.4 years ago by ★ 2.1k • written 10.4 years ago by • 0
5
votes
2
replies
3.5k
views
News: Ensembl release 81 is out!
human mouse GRCh38 biomart Ensembl News
updated 10.4 years ago by ▴ 390 • written 10.4 years ago by ▴ 800
2
votes
4
replies
2.2k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl macaque dbsnp customprodb
updated 10.4 years ago by ▴ 50 • written 10.4 years ago by • 0
0
votes
2
replies
2.0k
views
Ensembl database query with biomart behaves strangely when using chromosomes as filter values
biomart ensembl
updated 10.5 years ago by ▴ 800 • written 10.5 years ago by ▴ 20
2
votes
1
reply
1.5k
views
Why does biomaRt query show inconsistent behavior with ensembl versions from March and May
biomart ensembl
10.5 years ago jmeisig ▴ 20
2
votes
1
reply
1.5k
views
GoSeq: use ENSEMBLTRANS as input
goseq ensembl
updated 10.5 years ago by ▴ 320 • written 10.5 years ago by ▴ 10
9
votes
1
reply
2.8k
views
News: Ensembl release 80 is out!
biomart Ensembl zebrafish Rat 1000 genomes phase 3 News
updated 10.6 years ago by ▴ 390 • written 10.6 years ago by ▴ 800
0
votes
0
replies
2.0k
views
News: Ensembl GRCh37 release 79 data update
biomart ensembl release news GRCh37 News
10.7 years ago Thomas Maurel ▴ 800
0
votes
5
replies
2.2k
views
News: Ensembl 79 release is out!
Ensembl biomart release news News
updated 10.8 years ago by ★ 8.2k • written 10.8 years ago by ▴ 20
0
votes
6
replies
3.0k
views
converting UniProt to SGD ids using UniProt.wd
uniprot.ws uniprot ensembl
updated 10.9 years ago by ★ 7.2k • written 10.9 years ago by ▴ 160
0
votes
2
replies
2.7k
views
use BiomartGeneRegionTrack with the dataset grch37.ensembl.org
gviz ensembl biomart
11.0 years ago Tiphaine Martin ▴ 40
0
votes
2
replies
2.0k
views
Missing ensembl_ids in biomaRt uniprot query
biomaRt uniprot ensembl
updated 11.0 years ago by • 0 • written 11.0 years ago by ▴ 510
0
votes
0
replies
1.5k
views
News: Ensembl 78 release is out!
Ensembl Biomart News
11.0 years ago amonida ▴ 20
6
votes
5
replies
8.9k
views
biomaRt: no access to Ensembl_75 (GRCh37.p13)
biomarRt ensembl
updated 11.1 years ago by • 0 • written 11.1 years ago by • 0
2
votes
3
replies
12k
views
BiomaRt: protein coding transcript identification
ensembl protein coding biomart
updated 11.1 years ago by ▴ 800 • written 11.1 years ago by ▴ 120
13
votes
8
replies
18k
views
how to use biomaRt with ensembl build 37
biomaRt ensembl GRCh37
updated 11.1 years ago by ▴ 800 • written 11.2 years ago by ▴ 90
0
votes
0
replies
1.7k
views
News: Useful information about Ensembl release 77 mart databases
ensembl biomart Vervet-AGM News
11.2 years ago Thomas Maurel ▴ 800
142 results • Page 3 of 3
Recent ...
Replies
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…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
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
Awards • All
Popular Question to James W. MacDonald 68k
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Commentator to sina.nassiri ▴ 130
Popular Question to Hervé Pagès 16k
Popular Question to jared.andrews07 ▴ 30
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