Showing : annotation • reset
1
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719
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Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
annotation geneIDs flatheadmullet
updated 4 days ago by 68k • written 4 days ago by • 0
1
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1
reply
152
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Merging annotation with differential expression output
annotation RNASeqData
updated 12 days ago by 68k • written 12 days ago by • 0
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2
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364
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Annotation package for Manduca sexta
annotation Manducasexta AnnotationData
12 days ago • updated 10 days ago GA ▴ 10
1
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2
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1.5k
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help documentation for keytypes in annotationdbi packages
annotation
updated 5 weeks ago by ▴ 10 • written 4.5 years ago by • 0
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0
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118
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Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
7 weeks ago Muhammad • 0
0
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1
reply
177
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affymetrix
genomes Annotation
updated 10 weeks ago by 68k • written 10 weeks ago by • 0
5
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13
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2.0k
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Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
5 months ago KABILAN • 0
0
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1
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333
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how do I convert an Ilumn IDREF to a CPG loci
AnnotationDbi Annotation annotation BiologicalQuestion
updated 6 months ago by 68k • written 6 months ago by • 0
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0
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408
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Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
7 months ago Aleena ▴ 30
1
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2
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961
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Struggling to convert a large list of non-model genes into human orthologs, any suggestions?
annotation
9 months ago ronin • 0
2
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2
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788
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Get gene symbols for a set of hg19 coordinates
annotation hg19
10 months ago pcantalupo ▴ 10
1
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6
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1.2k
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 12 months ago by ▴ 230 • written 12 months ago by • 0
2
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2
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1.1k
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 12 months ago by ▴ 10
0
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0
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601
views
Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
14 months ago nilanjanamani88 • 0
0
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5
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2.4k
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Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 11.3 years ago by ★ 13k
5
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11
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4.9k
views
How to annotate gene names for genomic coordinates?
annotation
written 9.8 years ago by • 0
0
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1
reply
898
views
Create design matrix for differential methylation analysis
Annotation annotate DifferentialMethylation minfiDataEPIC
updated 18 months ago by ▴ 780 • written 18 months ago by • 0
1
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0
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1.2k
views
News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0 release Annotation
18 months ago kayla.interdonato ▴ 160
0
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1
reply
6.9k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
updated 18 months ago by 68k • written 18 months ago by • 0
3
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4
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1.1k
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData GSE97562 pd.hugene.1.0.st.v1 Annotation
updated 20 months ago by 68k • written 20 months ago by • 0
2
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4
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1.6k
views
Use with_go along with other filters in getBM function
Annotation biomaRt
22 months ago RuBBiT0 ▴ 10
0
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2
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1.4k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 23 months ago by 68k • written 23 months ago by • 0
0
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4
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1.7k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
23 months ago • updated 22 months ago Michael Steinbaugh ▴ 90
0
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0
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882
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AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
2.0 years ago ahiser • 0
0
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3
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1.1k
views
Annotated dendogram (tree) from tbl_graph
dendogram ggtreeExtra ggtree annotation Annotation
2.0 years ago christian.dina • 0
0
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0
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1.1k
views
News: Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release db0 Annotation
2.0 years ago kayla.interdonato ▴ 160
2
votes
1
reply
825
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
votes
1
reply
1.3k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 2.2 years ago by 68k • written 2.2 years ago by ▴ 50
3
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3
replies
1.8k
views
Is ther an annotation package for sheep (Ovis aries)
sheep database_package Annotation
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by ▴ 10
0
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1
reply
796
views
Bioconductor tool for curating annotations?
Annotation
updated 2.2 years ago by ▴ 760 • written 2.2 years ago by ▴ 180
3
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2
replies
3.1k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2 PackageTypeData package Annotation
2.2 years ago m-bihie ▴ 10
1
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9
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2.0k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
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3
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1.3k
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A look inside annotation packages
Annotation
2.3 years ago Ed Siefker ▴ 230
3
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2
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8.1k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 2.3 years ago by ▴ 200 • written 7.3 years ago by • 0
2
votes
3
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2.6k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 2.2 years ago by • 0 • written 2.4 years ago by ▴ 10
0
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5
replies
3.0k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 2.5 years ago by ★ 4.1k • written 2.5 years ago by ▴ 30
0
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0
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1.1k
views
News: Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release db0 annotation
2.5 years ago kayla.interdonato ▴ 160
0
votes
1
reply
807
views
Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
1
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3
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2.8k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 2.8 years ago by 68k • written 2.8 years ago by ▴ 60
0
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1
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1.3k
views
News: Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation release db0
3.0 years ago kayla.interdonato ▴ 160
0
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0
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879
views
low mapping between annotated genome and transcriptome
transcriptome Annotation mapping
3.0 years ago Ava • 0
0
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1
reply
1.1k
views
peak annotation
ChIPpeakAnno Annotation
updated 3.0 years ago by ▴ 70 • written 3.1 years ago by ▴ 670
0
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0
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974
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using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
3.2 years ago Amandeep • 0
0
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1
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1.6k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.2 years ago by ▴ 890 • written 3.4 years ago by • 0
0
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1
reply
1.8k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 3.2 years ago by 4.1k • written 3.2 years ago by ▴ 20
0
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0
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939
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation annotatr
3.3 years ago Ahdee ▴ 60
0
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2
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3.1k
views
getBM error in the biomaRt R package
Annotation
updated 2.6 years ago by • 0 • written 3.4 years ago by • 0
0
votes
1
reply
1.3k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 3.4 years ago by • 0
0
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0
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1.1k
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process annotationTools AnnotationFilter Annotation biomaRt
3.4 years ago Shane • 0
0
votes
1
reply
1.2k
views
Issue with annotation package mouse4302.db
mouse4302.db annotation
updated 3.4 years ago by 68k • written 3.4 years ago by • 0
50 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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