Showing : biomaRt • reset
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1.9k
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biomaRt proxy issues
biomaRt biomaRt
updated 11.6 years ago by ▴ 30 • written 11.6 years ago by ★ 13k
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1
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1.5k
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biomaRt mapping id RP5-1043L13.1
biomaRt Vega biomaRt Vega
updated 11.7 years ago by ▴ 800 • written 11.7 years ago by ▴ 930
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1
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2.2k
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getBM and sqldf error - no such table
GO biomaRt GO biomaRt
updated 11.7 years ago by 68k • written 11.7 years ago by ★ 13k
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1.8k
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easyRNASeq: Number of total counts
GeneExpression RNASeq Genetics Coverage Normalization BSgenome Biobase Biostrings biomaRt
11.8 years ago Guest User ★ 13k
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BiomaRt getBM error: Unknown column
convert biomaRt convert biomaRt
11.8 years ago Guest User ★ 13k
0
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1
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1.4k
views
countOverlaps gives an empty SummarizeExperiments
RNASeq Alignment biomaRt rtracklayer DESeq RNASeq Alignment biomaRt rtracklayer DESeq
updated 11.8 years ago by 25k • written 11.8 years ago by ★ 13k
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1
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2.0k
views
Problem retrieving dN/dS from Biomart
biomaRt biomaRt
updated 11.8 years ago by 68k • written 11.8 years ago by ▴ 10
1
vote
1
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1.4k
views
matching Entrez-IDs to Affy probesets using biomaRt
biomaRt biomaRt
updated 11.8 years ago by ★ 7.2k • written 11.8 years ago by ★ 6.0k
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2
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1.1k
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biomaRt and rma
biomaRt biomaRt
updated 11.8 years ago by 68k • written 11.8 years ago by ★ 6.0k
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4
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1.8k
views
Extracting strand information from GenomicFeatures transcript db objects
TranscriptDb biomaRt TranscriptDb biomaRt
updated 11.9 years ago by 16k • written 11.9 years ago by ▴ 100
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3
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1.7k
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Using Biomart other than Ensembl
Bos taurus biomaRt Bos taurus biomaRt
updated 11.9 years ago by 68k • written 11.9 years ago by ★ 13k
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1
reply
1.3k
views
bioMart request failed
biomaRt biomaRt
updated 11.9 years ago by ▴ 540 • written 11.9 years ago by ★ 13k
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0
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1.6k
views
OMIM - biomaRt?
biomaRt biomaRt
11.9 years ago Tim Smith ★ 1.1k
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6
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2.1k
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Problem with filtering genes in biomaRt
biomaRt biomaRt
updated 11.9 years ago by ▴ 800 • written 11.9 years ago by ★ 13k
1
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4
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3.7k
views
howto map HuEx-1_0-st-v2 transcript_cluster_id's to gene symbols
biomaRt biomaRt
updated 12.0 years ago by 6.7k • written 12.0 years ago by ▴ 60
2
votes
2
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3.8k
views
biomaaRt error: Extra content at the end of the document
biomaRt biomaRt
updated 12.0 years ago by ▴ 540 • written 12.0 years ago by ▴ 240
0
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1
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2.0k
views
retrieving LD between two known SNPs with rsID
biomaRt biomaRt
updated 12.0 years ago by ★ 6.8k • written 12.0 years ago by ▴ 380
0
votes
9
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3.5k
views
Problems Counting Reads with summarizeOverlaps
biomaRt Rsamtools biomaRt Rsamtools
updated 12.1 years ago by ★ 6.8k • written 12.1 years ago by ▴ 300
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4
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5.3k
views
RefSeq coordinates from biomaRt
biomaRt biomaRt
updated 12.1 years ago by 21k • written 12.1 years ago by ▴ 210
1
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1
reply
3.0k
views
how to get Entrez Gene ID from genomic coordinates
biomaRt biomaRt
updated 12.1 years ago by 68k • written 12.1 years ago by ▴ 20
0
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4
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1.9k
views
retrieving annotation
Annotation biomaRt GenomicFeatures Annotation biomaRt GenomicFeatures
updated 12.2 years ago by 16k • written 12.2 years ago by ▴ 110
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2
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2.3k
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biomaRt : cannot useMart with biomart.informatics.jax.org because host="lindon"
biomaRt Vega biomaRt Vega
updated 12.2 years ago by ▴ 540 • written 12.2 years ago by 43k
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3
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3.9k
views
Working with ensembl 73 & BSGenome
Annotation BSgenome TranscriptDb biomaRt BSgenome Annotation BSgenome TranscriptDb biomaRt
updated 12.2 years ago by 16k • written 12.2 years ago by ★ 13k
0
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1
reply
1.6k
views
ChIPpeakAnno, getAnnotation question
Annotation zebrafish convert biomaRt ChIPpeakAnno Annotation zebrafish convert biomaRt
updated 12.3 years ago by ★ 4.3k • written 12.3 years ago by ▴ 10
0
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0
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901
views
Batch retrieval of transcript and aminoacid lengths for a list of HGNC IDs
biomaRt biomaRt
12.3 years ago Gabriele Zoppoli ▴ 50
0
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1
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1.7k
views
ChIPpeakAnno, getAnnotation question
Annotation GO zebrafish convert biomaRt ChIPpeakAnno Annotation GO zebrafish convert
updated 12.3 years ago by ★ 4.3k • written 12.3 years ago by ★ 13k
3
votes
5
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5.9k
views
getBM returns shorter vectors than values
annotate biomaRt oligo annotate biomaRt oligo
updated 12.3 years ago by ▴ 540 • written 12.3 years ago by ▴ 380
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0
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1.7k
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creating geneset files (.gmt) for GSEA
GO biomaRt GO biomaRt
12.4 years ago Nehme Hachem ▴ 20
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2
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3.1k
views
BiomaRt and archival versions of ensembl_mart
biomaRt biomaRt
updated 12.4 years ago by ▴ 540 • written 12.4 years ago by ▴ 50
1
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3
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2.3k
views
Bug in makeOrgPackageFromNCBI from AnnotationForge?
Alignment Annotation Organism Schizosaccharomyces pombe biomaRt AnnotationForge Alignment
updated 12.4 years ago by ★ 7.2k • written 12.4 years ago by ▴ 220
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0
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873
views
Course: Understanding R / Bioconductor, Sept 30-Oct 1, Seattle
Cancer Biostrings biomaRt IRanges GenomicRanges Cancer Biostrings biomaRt IRanges
12.4 years ago Martin Morgan 25k
1
vote
3
replies
3.2k
views
Problem with RIPSeeker
biomaRt RIPSeeker biomaRt RIPSeeker
updated 12.4 years ago by ▴ 510 • written 12.4 years ago by ▴ 30
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0
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1.5k
views
bioMart GO inconsistency, normal?
GO biomaRt GO biomaRt
12.4 years ago R Tagett ▴ 30
0
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0
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1.7k
views
RIPSeeker multicore option not working fully?
GO biomaRt RIPSeeker GO biomaRt RIPSeeker
12.4 years ago Davis, Wade ▴ 350
0
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0
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1.1k
views
Help with ensembl variation biomaRt query
SNP biomaRt SNP biomaRt
12.6 years ago William Noderer ▴ 10
1
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0
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1.8k
views
return value used for filter amongst attributes, getBM(), biomaRt
GO biomaRt GenomicRanges GO biomaRt GenomicRanges
12.6 years ago James Perkins ▴ 120
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2
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1.7k
views
unimart web Service not available
biomaRt biomaRt
updated 12.6 years ago by ▴ 90 • written 12.6 years ago by ★ 13k
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3
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11k
views
[biomaRt] Finding Orthologs genes between Human and Mouse - problem with getBM to retrieve some attributes
biomaRt biomaRt
updated 12.6 years ago by ▴ 540 • written 12.6 years ago by ▴ 20
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2
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2.6k
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Annotation of Human Exon 1.0 ST
annotate biomaRt oligo annotate biomaRt oligo
updated 12.6 years ago by ★ 4.3k • written 12.7 years ago by ★ 13k
0
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1
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1.1k
views
R crash on getBM query
SNP Annotation biomaRt SNP Annotation biomaRt
updated 12.7 years ago by 21k • written 12.7 years ago by ▴ 10
0
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4
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1.8k
views
Queries about getting annotation post-Limma analysis
Normalization affy limma biomaRt oligo Normalization affy limma biomaRt oligo
updated 12.7 years ago by ▴ 750 • written 12.7 years ago by ▴ 180
0
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0
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1.2k
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Error in example from biomaRt vignette
biomaRt BRAIN biomaRt BRAIN
12.7 years ago Steffen Durinck ▴ 90
0
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1
reply
1.8k
views
biomaRt not returning expected results
Annotation annotate biomaRt Annotation annotate biomaRt
updated 12.7 years ago by ▴ 540 • written 12.7 years ago by ★ 13k
0
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1
reply
3.6k
views
GViz trouble retreiving X chromosome data with BiomartGeneRegionTrack
biomaRt Gviz biomaRt Gviz
updated 12.7 years ago by ▴ 750 • written 12.8 years ago by ▴ 210
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0
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949
views
Replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
12.8 years ago shirley zhang ★ 1.0k
0
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0
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1.1k
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replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
12.8 years ago shirley zhang ★ 1.0k
0
votes
2
replies
1.7k
views
ChIPpeakAnno query
Microarray Annotation Cancer Prostate annotate affy convert biomaRt ChIPpeakAnno Cancer
updated 12.8 years ago by ▴ 10 • written 12.8 years ago by ★ 4.3k
0
votes
7
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2.3k
views
error with retrieving dn and ds using biomart
biomaRt biomaRt
updated 12.8 years ago by 68k • written 12.8 years ago by ▴ 40
0
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0
replies
1.3k
views
Analysis inquiry for Affymetrix Human Exon ST1.0 array
Annotation Normalization biomaRt Annotation Normalization biomaRt
12.8 years ago Jeremy Ng ▴ 180
0
votes
1
reply
1.7k
views
Segfault in MEDIPS MEDIPS.methylProfiling() with ROI file
Preprocessing BSgenome biomaRt BSgenome GenomicRanges MEDIPS Preprocessing BSgenome MEDIPS
updated 12.8 years ago by ▴ 570 • written 12.8 years ago by ▴ 290
1,084 results • Page 12 of 22
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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