Showing : annotation • reset
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Bioconductor version cannot be validated
Bioconductor Annotation Ann
written 2.3 years ago by • 0
0
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5
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2.5k
views
Aclust package: IlluminaHumanMethylation450kCHR37 not found
illuminahumanmethylation450k.db aclust methylation annotation illumina
written 9.4 years ago by • 0
1
vote
2
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1.1k
views
Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
annotation geneIDs flatheadmullet
updated 8 months ago by 68k • written 8 months ago by • 0
1
vote
1
reply
439
views
Merging annotation with differential expression output
annotation RNASeqData
updated 8 months ago by 68k • written 8 months ago by • 0
0
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2
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649
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Annotation package for Manduca sexta
annotation Manducasexta AnnotationData
8 months ago GA ▴ 10
1
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2
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1.9k
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help documentation for keytypes in annotationdbi packages
annotation
updated 9 months ago by ▴ 10 • written 5.2 years ago by • 0
0
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0
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416
views
Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
10 months ago Muhammad • 0
0
votes
1
reply
463
views
affymetrix
genomes Annotation
updated 11 months ago by 68k • written 11 months ago by • 0
5
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13
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2.5k
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Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
14 months ago KABILAN • 0
0
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1
reply
573
views
how do I convert an Ilumn IDREF to a CPG loci
AnnotationDbi Annotation annotation BiologicalQuestion
updated 14 months ago by 68k • written 14 months ago by • 0
0
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0
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672
views
Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
15 months ago Aleena_Ensembl ▴ 30
1
vote
2
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1.2k
views
Struggling to convert a large list of non-model genes into human orthologs, any suggestions?
annotation
17 months ago ronin • 0
2
votes
2
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1.3k
views
Get gene symbols for a set of hg19 coordinates
annotation hg19
19 months ago pcantalupo ▴ 10
1
vote
6
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1.8k
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 20 months ago by ▴ 230 • written 20 months ago by • 0
2
votes
2
replies
1.4k
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 21 months ago by ▴ 10
0
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0
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823
views
Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
22 months ago nilanjanamani88 • 0
0
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5
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2.8k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 12.0 years ago by ★ 13k
5
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11
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5.4k
views
How to annotate gene names for genomic coordinates?
annotation
written 10.5 years ago by • 0
0
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1
reply
1.1k
views
Create design matrix for differential methylation analysis
Annotation annotate DifferentialMethylation minfiDataEPIC
updated 2.2 years ago by ▴ 780 • written 2.2 years ago by • 0
1
vote
0
replies
1.7k
views
News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0 release Annotation
2.2 years ago kayla.interdonato ▴ 160
3
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4
replies
1.3k
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData GSE97562 pd.hugene.1.0.st.v1 Annotation
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
2
votes
4
replies
1.9k
views
Use with_go along with other filters in getBM function
Annotation biomaRt
2.6 years ago • updated 2.5 years ago RuBBiT0 ▴ 10
0
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2
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1.7k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
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4
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2.1k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
2.6 years ago Michael Steinbaugh ▴ 90
0
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0
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1.2k
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
2.7 years ago ahiser • 0
0
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3
replies
1.4k
views
Annotated dendogram (tree) from tbl_graph
dendogram ggtreeExtra ggtree annotation Annotation
2.7 years ago christian.dina • 0
0
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0
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1.4k
views
News: Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release db0 Annotation
2.7 years ago kayla.interdonato ▴ 160
2
votes
1
reply
1.0k
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
0
votes
1
reply
1.6k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 2.9 years ago by 68k • written 2.9 years ago by ▴ 50
3
votes
3
replies
2.2k
views
Is ther an annotation package for sheep (Ovis aries)
sheep database_package Annotation
updated 2.9 years ago by ★ 4.1k • written 2.9 years ago by ▴ 10
0
votes
1
reply
969
views
Bioconductor tool for curating annotations?
Annotation
updated 2.9 years ago by ▴ 760 • written 2.9 years ago by ▴ 180
3
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2
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3.6k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2 PackageTypeData package Annotation
2.9 years ago m-bihie ▴ 10
1
vote
9
replies
2.3k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
0
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3
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1.5k
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A look inside annotation packages
Annotation
3.0 years ago Ed Siefker ▴ 230
3
votes
2
replies
9.0k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 3.0 years ago by ▴ 200 • written 8.0 years ago by • 0
2
votes
3
replies
3.1k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 2.9 years ago by • 0 • written 3.1 years ago by ▴ 10
0
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5
replies
3.5k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 3.2 years ago by ★ 4.1k • written 3.2 years ago by ▴ 30
0
votes
0
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1.4k
views
News: Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release db0 annotation
3.2 years ago kayla.interdonato ▴ 160
0
votes
1
reply
960
views
Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
1
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3
replies
3.3k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 3.5 years ago by 68k • written 3.5 years ago by ▴ 60
0
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1
reply
1.5k
views
News: Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation release db0
3.7 years ago kayla.interdonato ▴ 160
0
votes
0
replies
1.1k
views
low mapping between annotated genome and transcriptome
transcriptome Annotation mapping
3.7 years ago Ava • 0
0
votes
1
reply
1.4k
views
peak annotation
ChIPpeakAnno Annotation
updated 3.7 years ago by ▴ 70 • written 3.8 years ago by ▴ 670
0
votes
0
replies
1.2k
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
3.9 years ago Amandeep • 0
0
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1
reply
1.9k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.9 years ago by ▴ 890 • written 4.1 years ago by • 0
0
votes
1
reply
2.1k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 3.9 years ago by 4.2k • written 3.9 years ago by ▴ 20
0
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0
replies
1.1k
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation annotatr
4.0 years ago Ahdee ▴ 60
0
votes
2
replies
3.5k
views
getBM error in the biomaRt R package
Annotation
updated 3.3 years ago by • 0 • written 4.1 years ago by • 0
0
votes
1
reply
1.5k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 4.1 years ago by • 0
0
votes
0
replies
1.4k
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process annotationTools AnnotationFilter Annotation biomaRt
4.1 years ago Shane • 0
1,978 results • Page 1 of 40
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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…
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
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