Showing : Annotation • reset
5
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13
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1.6k
views
Installing annotation package in locally
AnnotationDbi AnnotationHub Annotation AnnotationForge
8 weeks ago KABILAN • 0
0
votes
1
reply
229
views
how do I convert an Ilumn IDREF to a CPG loci
AnnotationDbi Annotation annotation BiologicalQuestion
updated 11 weeks ago by 67k • written 11 weeks ago by • 0
0
votes
0
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310
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Job: Ensembl Job Vacancies
genomes Annotation GenomicVariation ensembldb
3 months ago Aleena ▴ 30
1
vote
2
replies
844
views
Struggling to convert a large list of non-model genes into human orthologs, any suggestions?
annotation
5 months ago ronin • 0
2
votes
2
replies
593
views
Get gene symbols for a set of hg19 coordinates
annotation hg19
7 months ago pcantalupo ▴ 10
1
vote
6
replies
979
views
unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 8 months ago by ▴ 200 • written 8 months ago by • 0
2
votes
2
replies
783
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 9 months ago by ▴ 10
0
votes
0
replies
490
views
Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
10 months ago nilanjanamani88 • 0
0
votes
5
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2.3k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 11.0 years ago by ★ 13k
5
votes
11
replies
4.7k
views
How to annotate gene names for genomic coordinates?
annotation
written 9.5 years ago by • 0
0
votes
1
reply
772
views
Create design matrix for differential methylation analysis
Annotation annotate DifferentialMethylation minfiDataEPIC
updated 15 months ago by ▴ 780 • written 15 months ago by • 0
1
vote
0
replies
990
views
News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0 release Annotation
15 months ago kayla.interdonato ▴ 160
0
votes
1
reply
6.1k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
updated 15 months ago by 67k • written 15 months ago by • 0
3
votes
4
replies
977
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData GSE97562 pd.hugene.1.0.st.v1 Annotation
updated 17 months ago by 67k • written 17 months ago by • 0
2
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4
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1.4k
views
Use with_go along with other filters in getBM function
Annotation biomaRt
19 months ago • updated 18 months ago RuBBiT0 ▴ 10
0
votes
2
replies
1.2k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 19 months ago by 67k • written 19 months ago by • 0
0
votes
4
replies
1.6k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
19 months ago Michael Steinbaugh ▴ 90
0
votes
0
replies
795
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
21 months ago • updated 20 months ago ahiser • 0
0
votes
3
replies
998
views
Annotated dendogram (tree) from tbl_graph
dendogram ggtreeExtra ggtree annotation Annotation
21 months ago christian.dina • 0
0
votes
0
replies
1.0k
views
News: Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release db0 Annotation
21 months ago kayla.interdonato ▴ 160
2
votes
1
reply
728
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 22 months ago by 67k • written 22 months ago by • 0
0
votes
1
reply
1.2k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 22 months ago by 67k • written 22 months ago by ▴ 50
3
votes
3
replies
1.6k
views
Is ther an annotation package for sheep (Ovis aries)
sheep database_package Annotation
updated 22 months ago by ★ 4.1k • written 22 months ago by ▴ 10
0
votes
1
reply
724
views
Bioconductor tool for curating annotations?
Annotation
updated 22 months ago by ▴ 760 • written 23 months ago by ▴ 180
3
votes
2
replies
2.8k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2 PackageTypeData package Annotation
23 months ago m-bihie ▴ 10
1
vote
9
replies
1.8k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 23 months ago by 67k • written 23 months ago by • 0
0
votes
3
replies
1.2k
views
A look inside annotation packages
Annotation
2.0 years ago Ed Siefker ▴ 230
3
votes
2
replies
7.4k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 2.0 years ago by ▴ 200 • written 7.0 years ago by • 0
2
votes
3
replies
2.3k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 23 months ago by • 0 • written 2.1 years ago by ▴ 10
0
votes
5
replies
2.7k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by ▴ 30
0
votes
0
replies
1.0k
views
News: Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release db0 annotation
2.2 years ago kayla.interdonato ▴ 160
0
votes
1
reply
758
views
Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 2.3 years ago by 67k • written 2.3 years ago by • 0
1
vote
3
replies
2.4k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 2.5 years ago by 67k • written 2.5 years ago by ▴ 60
0
votes
1
reply
1.2k
views
News: Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation release db0
2.7 years ago kayla.interdonato ▴ 160
0
votes
0
replies
787
views
low mapping between annotated genome and transcriptome
transcriptome Annotation mapping
2.7 years ago Ava • 0
0
votes
1
reply
1.1k
views
peak annotation
ChIPpeakAnno Annotation
updated 2.7 years ago by ▴ 70 • written 2.8 years ago by ▴ 670
0
votes
0
replies
895
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
2.9 years ago Amandeep • 0
0
votes
1
reply
1.4k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.9 years ago by ▴ 870 • written 3.1 years ago by • 0
0
votes
1
reply
1.6k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 2.9 years ago by 4.1k • written 2.9 years ago by ▴ 20
0
votes
0
replies
870
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation annotatr
3.0 years ago Ahdee ▴ 50
0
votes
2
replies
2.6k
views
getBM error in the biomaRt R package
Annotation
updated 2.4 years ago by • 0 • written 3.1 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 3.1 years ago by • 0
0
votes
0
replies
1.1k
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process annotationTools AnnotationFilter Annotation biomaRt
3.1 years ago Shane • 0
0
votes
1
reply
1.1k
views
Issue with annotation package mouse4302.db
mouse4302.db annotation
updated 3.1 years ago by 67k • written 3.1 years ago by • 0
1
vote
1
reply
1.8k
views
Is there any R package for filtering out SNP markers?
Tutorial annotation
updated 3.2 years ago by ★ 4.0k • written 5.4 years ago by ▴ 20
0
votes
1
reply
862
views
anotacion para Anopheles Albimanus
anopheles_albimanus Annotation
updated 3.3 years ago by 4.1k • written 3.3 years ago by • 0
3
votes
1
reply
2.6k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 3.3 years ago by 67k • written 3.3 years ago by • 0
1
vote
1
reply
2.7k
views
ComplexHeatmap: Not able to change the annotations size of the heatmap
ComplexHeatmap Anno Annotation
updated 3.3 years ago by ▴ 290 • written 3.3 years ago by ▴ 10
1
vote
2
replies
3.2k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation AnnotationDbi annotate
updated 3.4 years ago by 67k • written 3.4 years ago by • 0
5
votes
10
replies
2.6k
views
How to do annotation with Limma
annotation limma
updated 3.5 years ago by ★ 4.1k • written 3.5 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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