Showing : Annotation • reset
0
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6
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281
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unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 7 days ago by ▴ 170 • written 16 days ago by • 0
2
votes
1
reply
174
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Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 25 days ago by ★ 3.9k • written 27 days ago by ▴ 10
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0
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138
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Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
10 weeks ago nilanjanamani88 • 0
0
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5
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2.0k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 10.3 years ago by ★ 13k
5
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11
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4.1k
views
How to annotate gene names for genomic coordinates?
annotation
written 8.8 years ago by • 0
0
votes
1
reply
430
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Create design matrix for differential methylation analysis
Annotation annotate DifferentialMethylation minfiDataEPIC
updated 6 months ago by ▴ 770 • written 6 months ago by • 0
1
vote
0
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358
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News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0 release Annotation
6 months ago kayla.interdonato ▴ 160
0
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1
reply
3.3k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
updated 7 months ago by 65k • written 7 months ago by • 0
3
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4
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643
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData GSE97562 pd.hugene.1.0.st.v1 Annotation
updated 9 months ago by 65k • written 9 months ago by • 0
2
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4
replies
901
views
Use with_go along with other filters in getBM function
Annotation biomaRt
10 months ago RuBBiT0 ▴ 10
0
votes
2
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680
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 11 months ago by 65k • written 11 months ago by • 0
0
votes
4
replies
1.1k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
11 months ago Michael Steinbaugh ▴ 90
0
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0
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494
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
12 months ago ahiser • 0
0
votes
3
replies
694
views
Annotated dendogram (tree) from tbl_graph
dendogram ggtreeExtra ggtree annotation Annotation
12 months ago christian.dina • 0
0
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0
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625
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News: Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release db0 Annotation
13 months ago kayla.interdonato ▴ 160
2
votes
1
reply
509
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData Annotation GEOdata
updated 14 months ago by 65k • written 14 months ago by • 0
0
votes
1
reply
787
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 14 months ago by 65k • written 14 months ago by ▴ 50
3
votes
3
replies
1.0k
views
Is ther an annotation package for sheep (Ovis aries)
sheep database_package Annotation
updated 14 months ago by ★ 3.9k • written 14 months ago by ▴ 10
0
votes
1
reply
521
views
Bioconductor tool for curating annotations?
Annotation
updated 14 months ago by ▴ 730 • written 14 months ago by ▴ 180
3
votes
2
replies
2.0k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2 PackageTypeData package Annotation
14 months ago m-bihie ▴ 10
1
vote
9
replies
1.2k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 15 months ago by 65k • written 15 months ago by • 0
0
votes
3
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866
views
A look inside annotation packages
Annotation
16 months ago Ed Siefker ▴ 230
1
vote
2
replies
6.1k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 16 months ago by ▴ 20 • written 6.4 years ago by • 0
2
votes
3
replies
1.7k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal ensembldb rtracklayer Annotation
updated 15 months ago by • 0 • written 17 months ago by ▴ 10
0
votes
5
replies
2.0k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R ensembldb Annotation
updated 18 months ago by ★ 3.9k • written 18 months ago by ▴ 30
0
votes
0
replies
616
views
News: Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release db0 annotation
18 months ago kayla.interdonato ▴ 160
0
votes
1
reply
586
views
Annotation data packages for plant parasitic nematodes
AnnotationData Annotation
updated 19 months ago by 65k • written 19 months ago by • 0
1
vote
3
replies
1.6k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 22 months ago by 65k • written 22 months ago by ▴ 60
0
votes
1
reply
784
views
News: Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation release db0
2.0 years ago kayla.interdonato ▴ 160
0
votes
0
replies
599
views
low mapping between annotated genome and transcriptome
transcriptome Annotation mapping
2.0 years ago Ava • 0
0
votes
1
reply
775
views
peak annotation
ChIPpeakAnno Annotation
updated 2.0 years ago by ▴ 70 • written 2.1 years ago by ▴ 670
0
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0
replies
660
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
2.2 years ago Amandeep • 0
0
votes
1
reply
1.1k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.2 years ago by ▴ 870 • written 2.4 years ago by • 0
0
votes
1
reply
1.2k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 2.3 years ago by 3.8k • written 2.3 years ago by ▴ 20
0
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0
replies
687
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation annotatr
2.3 years ago Ahdee ▴ 50
0
votes
2
replies
1.7k
views
getBM error in the biomaRt R package
Annotation
updated 20 months ago by • 0 • written 2.4 years ago by • 0
0
votes
1
reply
940
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.4 years ago by • 0
0
votes
0
replies
768
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process annotationTools AnnotationFilter Annotation biomaRt
2.4 years ago Shane • 0
0
votes
1
reply
816
views
Issue with annotation package mouse4302.db
mouse4302.db annotation
updated 2.4 years ago by 65k • written 2.4 years ago by • 0
1
vote
1
reply
1.5k
views
Is there any R package for filtering out SNP markers?
Tutorial annotation
updated 2.6 years ago by ★ 3.9k • written 4.7 years ago by ▴ 20
0
votes
1
reply
692
views
anotacion para Anopheles Albimanus
anopheles_albimanus Annotation
updated 2.6 years ago by 3.8k • written 2.6 years ago by • 0
3
votes
1
reply
2.1k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 2.6 years ago by 65k • written 2.6 years ago by • 0
1
vote
1
reply
2.0k
views
ComplexHeatmap: Not able to change the annotations size of the heatmap
ComplexHeatmap Anno Annotation
updated 2.6 years ago by ▴ 260 • written 2.6 years ago by ▴ 10
1
vote
2
replies
2.6k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation AnnotationDbi annotate
updated 2.8 years ago by 65k • written 2.8 years ago by • 0
5
votes
10
replies
2.0k
views
How to do annotation with Limma
annotation limma
updated 2.8 years ago by ★ 3.9k • written 2.9 years ago by • 0
1
vote
2
replies
1.5k
views
trouble with ENSEMBL ids for Org.Ss.eg.db
Annotation org.Ss.eg.db AnnotationDbi
2.9 years ago carine.genet • 0
3
votes
9
replies
5.1k
views
LOC gene IDs for characterised genes in annotation files
Annotation RNAseq
updated 2.2 years ago by • 0 • written 2.9 years ago by • 0
1
vote
0
replies
813
views
News: Bioconductor 3.13 db0s, OrgDbs and TxDbs now available
annotation release db0
3.0 years ago kayla.interdonato ▴ 160
8
votes
2
replies
1.6k
views
how can I annotate my scRNAseq clusters from a Rat experiment?
scRNAseq Rattus_norvegicus_Data annotation
updated 2.9 years ago by ★ 4.0k • written 3.0 years ago by ▴ 10
0
votes
9
replies
1.7k
views
The GO annotation of fugal species outside of 20 model organisms is outdated
GO biomartr annotation ensemble fungi
updated 3.0 years ago by 65k • written 3.0 years ago by • 0
50 results • Page 1 of 1
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Comment: Differential peaks that were not identified in diffbind were identified in diseq by ATpoint ★ 4.0k
Make an MAplot. There is almost certainly an issue with normalization here given the very biased distribution of logFCs as in this Volcano.
Comment: significant difference of p-values with dream() after updating VariancePartition by gabriel.hoffman ▴ 100
See variancePartition updates for [v1.33.11](https://diseaseneurogenomics.github.io/variancePartition/news/index.html#variancepartition-133…
Comment: A ComBat-seq issue: the covariates are confounded by W. Evan Johnson ▴ 850
This is only partially confounded because there is overlap between the batches -- they both have GFP controls that can be used to remove ba…
Answer: Different number of exons in reference genome affects DEXSeq analysis by Alejandro Reyes ★ 1.9k
Likely the new annotation that you are using has more annotated isoforms, and thus the exons are splitted into more disjoint exonic bins. I…
Answer: Adding columns to DEXSeqResults object by Alejandro Reyes ★ 1.9k
I'd have a look into the match function, that could give you a mapping between the ids in the dxr1 object and your data frame of gene symbo…
Votes
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
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