Showing : annotation • reset
0
votes
4
replies
2.5k
views
Wrong annotation (TSS/TTS) for many genes: keytype="GENEID" with mapIds(TxDb.Mmusculus.UCSC.mm10.knownGene)
AnnotationDbi annotation TxDb.Mmusculus.UCSC.mm10.knownGene
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
1
vote
3
replies
1.0k
views
Use Tx2Gene for Annotation
deseq2 annotation r
updated 5.7 years ago by 43k • written 5.7 years ago by • 0
1
vote
6
replies
14k
views
Change fontsize/remove name of annotation ComplexHeatmap package
r rnaseq complexHeatmap annotation
updated 5.7 years ago by ▴ 290 • written 5.7 years ago by ▴ 10
0
votes
0
replies
888
views
The error when using "coMET" package
software error annotation
5.7 years ago yueli.yao • 0
3
votes
2
replies
1.7k
views
Goseq analysis related help.
annotation goseq
updated 5.7 years ago by ★ 13k • written 5.7 years ago by • 0
0
votes
2
replies
1.2k
views
Differential analysis of protein spectral counts using msnSet object
annotation edger
updated 5.7 years ago by ★ 4.0k • written 5.7 years ago by • 0
1
vote
2
replies
1.0k
views
Annotation best practices
annotation
updated 5.7 years ago by 68k • written 5.7 years ago by ▴ 20
0
votes
0
replies
1.5k
views
News: List of Deprecated Packages for Bioc3.12
deprecated experiment data software annotation News
5.7 years ago shepherl 4.3k
0
votes
3
replies
1.9k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 5.7 years ago by 68k • written 5.7 years ago by ▴ 670
0
votes
0
replies
1.1k
views
News: Updated annotation packages
annotation news News
5.8 years ago kayla.interdonato ▴ 160
0
votes
2
replies
1.3k
views
Problem in dowloading "TxDb.Hsapiens.UCSC.hg38.knownGene"
annotation software TxDb
updated 5.8 years ago by 68k • written 5.8 years ago by • 0
4
votes
10
replies
5.2k
views
how to analyze WGCNA results?
cancer probe deseq2 annotation normalization
updated 5.8 years ago by ★ 4.0k • written 5.8 years ago by ▴ 10
1
vote
0
replies
1.8k
views
News: ensembldb EnsDb databases for Ensembl release 100 added to AnnotationHub
ensembl annotation ensembldb News
5.8 years ago Johannes Rainer ★ 2.1k
1
vote
2
replies
2.4k
views
DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq python gtf gff3 annotation
5.8 years ago Raito92 ▴ 60
1
vote
1
reply
1.4k
views
News: Issues with annotation packages
annotation news release News
5.8 years ago kayla.interdonato ▴ 160
3
votes
3
replies
1.4k
views
AnnotationForge run by three days and do not end
annotation AnnotationForge
5.8 years ago Marcelo Laia ▴ 450
11
votes
15
replies
6.1k
views
Annotation for Affymetrix GeneChip PrimeView.
annotation
updated 5.8 years ago by ★ 4.0k • written 5.8 years ago by • 0
0
votes
3
replies
1.7k
views
News: Final List of Deprecated Packages for Bioc3.11
software annotation experiment data deprecated News
updated 5.8 years ago by ▴ 160 • written 5.9 years ago by 4.3k
0
votes
0
replies
1.5k
views
News: Bioconductor 3.11 OrgDb and TxDb packages now available
annotation news release News
5.8 years ago kayla.interdonato ▴ 160
7
votes
11
replies
4.7k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 5.8 years ago by ★ 3.4k • written 5.8 years ago by ▴ 60
2
votes
2
replies
3.0k
views
SingleR analysis with integrated data
annotation
updated 5.8 years ago by ▴ 10 • written 5.8 years ago by ▴ 10
4
votes
8
replies
10k
views
gene ID conversion
annotation
updated 3.0 years ago by ★ 4.0k • written 5.8 years ago by ▴ 20
0
votes
2
replies
1.1k
views
GO analysis without gene IDs?
deseq2 annotation go
updated 5.8 years ago by 43k • written 5.8 years ago by ▴ 60
2
votes
16
replies
2.8k
views
DESeq2 annotation file
annotation
5.9 years ago zen • 0
0
votes
1
reply
879
views
How to upload a custom genome build at Galaxy
annotation
5.9 years ago vidar.blikstad • 0
0
votes
3
replies
2.0k
views
Topgo, Deseq and KEGG pathway
annotation cancer
updated 5.9 years ago by 4.3k • written 5.9 years ago by • 0
0
votes
2
replies
12k
views
Clusterprofiler error: No gene can be mapped
software error go annotation clusterProfiler
updated 2.9 years ago by • 0 • written 5.9 years ago by • 0
0
votes
5
replies
1.2k
views
TxDb.Hsapiens.UCSC.hg38.knownGene gene locus error?
annotation
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
1
reply
783
views
Unexpected format to the list of available marts
annotation
updated 5.9 years ago by ★ 6.6k • written 5.9 years ago by • 0
0
votes
4
replies
1.8k
views
<N/A> Gene Ontology while using the AnnotationDbi package
go annotation annotationdbi
5.9 years ago CUCIO199 • 0
0
votes
8
replies
2.4k
views
SingleR analysis with just a subset of Immgen data
annotation
updated 5.9 years ago by ★ 29k • written 5.9 years ago by ▴ 10
0
votes
0
replies
1.1k
views
News: Bioconductor 3.11 db0s are available
annotation db0 news release News
5.9 years ago kayla.interdonato ▴ 160
1
vote
4
replies
1.2k
views
GenomicScores cannot find phastCons30way.UCSC.hg38 though package is loaded
annotation
updated 5.9 years ago by ★ 3.4k • written 5.9 years ago by ▴ 470
0
votes
3
replies
834
views
DEseq2 design tutorial with multiple experimental factors
deseq2 annotation normalization
5.9 years ago christophe.vanhaver • 0
0
votes
1
reply
781
views
can not load org.dm.eg.db library
annotation
updated 5.9 years ago by 25k • written 5.9 years ago by • 0
5
votes
10
replies
2.4k
views
tximport and stevia, how to build tx2gene without any reference genome
deseq2 annotation
updated 6.0 years ago by 43k • written 6.0 years ago by ▴ 60
0
votes
1
reply
786
views
TxDb.Hsapiens.UCSC.hg38.knownGene immunoglobulin
annotation
updated 6.0 years ago by 16k • written 6.0 years ago by • 0
2
votes
4
replies
5.6k
views
How to get list of all GOIDs with all genes in each GO term?
go annotation
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
1
vote
3
replies
1.3k
views
Extract the relevant information of the genes sets from the Bioconductor annotation package
org.Rn.eg.db annotation go
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
1
vote
4
replies
3.5k
views
Problem installing annotation packages AnnotationDbi & BiocFileCache
software error annotation
written 6.0 years ago by • 0
0
votes
0
replies
1.4k
views
News: List of Deprecated Packages Bioc 3.11
annotation experimentdata software release deprecation News
6.0 years ago shepherl 4.3k
1
vote
2
replies
1.5k
views
Microarray expression analysis
annotation
updated 6.0 years ago by 53k • written 6.0 years ago by • 0
0
votes
0
replies
1.4k
views
Error in trying to convert a gff file -> txdb object using GenomicFeatures::makeTxDbFromGFF()
GenomicFeatures annotation gff GenomicRanges
updated 6.0 years ago by 4.3k • written 6.0 years ago by • 0
1
vote
1
reply
2.6k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation affy normalization
updated 6.0 years ago by ★ 4.1k • written 6.0 years ago by • 0
9
votes
10
replies
2.6k
views
Mapping of GENE symbols into ENTREZ
limma annotation Gene
6.5 years ago • updated 6.0 years ago omarrafiqued ▴ 50
2
votes
4
replies
1.8k
views
Help with Missing Gene from hg38
annotation genome hg38 TxDb.Hsapiens.UCSC.hg38.knownGene BSgenome.Hsapiens.UCSC.hg38
updated 6.1 years ago by ▴ 160 • written 6.1 years ago by • 0
0
votes
3
replies
1.1k
views
biomaRt not returning correct lists
biomart annotation
6.1 years ago nkuperwasser • 0
0
votes
1
reply
2.7k
views
Error in .updateHubDB(hub_bfc, .class, url, proxy, localHub) :
annotation singlecell rna-seq
updated 6.1 years ago by 4.3k • written 6.1 years ago by • 0
6
votes
5
replies
1.8k
views
PTEN missing from TxDb.Hsapiens.UCSC.hg38.knownGene?
TxDb annotation TxDb.Hsapiens.UCSC.hg38.knownGene
updated 6.1 years ago by 4.3k • written 6.1 years ago by ▴ 150
0
votes
8
replies
5.5k
views
failling to install biomaRt
annotation
updated 4.3 years ago by • 0 • written 6.1 years ago by • 0
1,979 results • Page 3 of 40
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Answer: Unable to find ENTREZ IDs by James W. MacDonald 68k
Those are the 'symbols', and are a concatenation of LOC and the NCBI Gene ID (what used to be called an Entrez Gene ID). As an example:http…
Answer: Inconsistencies between accessor functions for TxDb databases with selected seql by a2a2hd42aa • 0
Technical inconsistencies in database accessors can disrupt your workflow, but finding a reliable source to download online mobile games sh…
Comment: Can sample-level weights be used when analysing GSVA scores in limma? by A.Barden ▴ 20
Thanks both for this useful information.
Comment: Reproducibility of code in various Bioconductor versions by Gordon Smyth 53k
SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by a2a2hd42aa • 0
Similarly, for structural complexity in the [He777 Game][1] APK, having precise control over every detail is what makes a high-performance …
Votes
Do I map probes to gene symbols BEFORE or AFTER differentially expressed gene analysis?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
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