Showing : Annotation • reset
0
votes
6
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323
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unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 21 days ago by ▴ 170 • written 29 days ago by • 0
2
votes
1
reply
208
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 5 weeks ago by ★ 3.9k • written 5 weeks ago by ▴ 10
0
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0
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166
views
Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
12 weeks ago nilanjanamani88 • 0
0
votes
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
votes
11
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4.2k
views
How to annotate gene names for genomic coordinates?
annotation
written 8.9 years ago by • 0
0
votes
1
reply
453
views
Create design matrix for differential methylation analysis
Annotation annotate DifferentialMethylation minfiDataEPIC
updated 7 months ago by ▴ 780 • written 7 months ago by • 0
1
vote
0
replies
390
views
News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0 release Annotation
7 months ago kayla.interdonato ▴ 160
0
votes
1
reply
3.5k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
updated 7 months ago by 65k • written 7 months ago by • 0
3
votes
4
replies
670
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
932
views
Use with_go along with other filters in getBM function
Annotation biomaRt
11 months ago RuBBiT0 ▴ 10
0
votes
2
replies
709
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
1.2k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
11 months ago Michael Steinbaugh ▴ 90
0
votes
0
replies
515
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb AnnotationDbi Annotation
13 months ago ahiser • 0
0
votes
3
replies
721
views
Annotated dendogram (tree) from tbl_graph
dendogram ggtreeExtra ggtree annotation Annotation
13 months ago christian.dina • 0
0
votes
0
replies
650
views
News: Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release db0 Annotation
13 months ago kayla.interdonato ▴ 160
2
votes
1
reply
533
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
817
views
Create an Annotation DB file for a non-model organism
AnnotationDbi annotation ChIPseeker
updated 15 months ago by 65k • written 15 months ago by ▴ 50
3
votes
3
replies
1.1k
views
Is ther an annotation package for sheep (Ovis aries)
sheep database_package Annotation
updated 15 months ago by ★ 3.9k • written 15 months ago by ▴ 10
0
votes
1
reply
536
views
Bioconductor tool for curating annotations?
Annotation
updated 15 months ago by ▴ 730 • written 15 months ago by ▴ 180
3
votes
2
replies
2.1k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2 PackageTypeData package Annotation
15 months ago m-bihie ▴ 10
1
vote
9
replies
1.3k
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
replies
887
views
A look inside annotation packages
Annotation
16 months ago Ed Siefker ▴ 230
1
vote
2
replies
6.2k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 17 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
631
views
News: Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release db0 annotation
19 months ago kayla.interdonato ▴ 160
0
votes
1
reply
600
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
802
views
News: Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation release db0
2.1 years ago • updated 2.0 years ago kayla.interdonato ▴ 160
0
votes
0
replies
612
views
low mapping between annotated genome and transcriptome
transcriptome Annotation mapping
2.1 years ago Ava • 0
0
votes
1
reply
795
views
peak annotation
ChIPpeakAnno Annotation
updated 2.0 years ago by ▴ 70 • written 2.1 years ago by ▴ 670
0
votes
0
replies
679
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware GOSemSim annotation
2.3 years ago Amandeep • 0
0
votes
1
reply
1.1k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.3 years ago by ▴ 870 • written 2.4 years ago by • 0
0
votes
1
reply
1.3k
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
votes
0
replies
707
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation annotatr
2.4 years ago Ahdee ▴ 50
0
votes
2
replies
1.8k
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
960
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.5 years ago by • 0
0
votes
0
replies
788
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process annotationTools AnnotationFilter Annotation biomaRt
2.5 years ago Shane • 0
0
votes
1
reply
843
views
Issue with annotation package mouse4302.db
mouse4302.db annotation
updated 2.5 years ago by 65k • written 2.5 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 4.8 years ago by ▴ 20
0
votes
1
reply
705
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
2.2k
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 2.7 years ago by ▴ 260 • written 2.7 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
2.1k
views
How to do annotation with Limma
annotation limma
updated 2.9 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
5.2k
views
LOC gene IDs for characterised genes in annotation files
Annotation RNAseq
updated 2.3 years ago by • 0 • written 3.0 years ago by • 0
1
vote
0
replies
826
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 3.0 years ago by ★ 4.1k • written 3.0 years ago by ▴ 10
0
votes
9
replies
1.8k
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: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq by james.zhang20 • 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Answer: Deseq2 and Normalization of RNA sequencing data by ATpoint ★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by Yveto • 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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