Showing : organism • reset
0
votes
8
replies
2.0k
views
AnnBuilder and Kegg
Pathways GO Survival Cancer Organism annotate affydata vsn AnnBuilder globaltest GO vsn
updated 17.5 years ago by ▴ 190 • written 17.5 years ago by ★ 2.9k
0
votes
10
replies
2.8k
views
gene set enrichment
Annotation Organism Annotation Organism
updated 2.1 years ago by 50k • written 11.4 years ago by ▴ 220
0
votes
4
replies
1.7k
views
easyRNASeq error
Sequencing Alignment Annotation Organism BSgenome biomaRt BSgenome easyRNASeq Sequencing
12.2 years ago delhomme@embl.de ★ 1.2k
0
votes
7
replies
1.5k
views
I have trouble running the AnnBuilder Vignette
Cancer Organism AnnBuilder Cancer Organism AnnBuilder
updated 19.5 years ago by 65k • written 19.5 years ago by ★ 2.0k
0
votes
4
replies
1.3k
views
Annotation data package is not being created
Annotation Organism PROcess Annotation Organism PROcess
updated 20.4 years ago by ★ 2.9k • written 20.4 years ago by ▴ 70
0
votes
4
replies
1.4k
views
cluster a set of genes based on another set of genes
Organism limma Organism limma
updated 17.2 years ago by ▴ 280 • written 17.2 years ago by ▴ 450
0
votes
7
replies
1.6k
views
annotation package for chicken affyprobes
Annotation Organism Gallus gallus probe AnnBuilder Annotation Organism Gallus gallus probe
updated 17.7 years ago by ▴ 180 • written 17.7 years ago by ▴ 870
0
votes
3
replies
2.7k
views
GOStats: summary hyperGTest, count and size
Annotation GO Organism GOstats Annotation GO Organism GOstats
10.1 years ago Christine Gläßer ▴ 60
0
votes
4
replies
1.8k
views
KEGGgraph
Pathways Organism graph PROcess KEGGgraph Pathways Organism graph PROcess KEGGgraph
11.5 years ago Ricardo Silva ▴ 110
0
votes
4
replies
1.4k
views
Error while using AnnBuilder
Annotation GO Organism annotate AnnBuilder Annotation GO Organism annotate AnnBuilder
updated 18.3 years ago by ★ 7.4k • written 18.3 years ago by ▴ 160
0
votes
6
replies
1.5k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt GenomicFeatures genomes Cancer Organism biomaRt GenomicFeatures
updated 12.1 years ago by ▴ 660 • written 12.2 years ago by 16k
0
votes
3
replies
1.5k
views
AnnBuilder/ABPkgBuilder: lots of Errors
Annotation GO Cancer Organism Biobase annotate AnnBuilder PROcess bridge Annotation GO
updated 19.7 years ago by ★ 2.9k • written 19.7 years ago by ▴ 90
0
votes
6
replies
1.5k
views
adding environment variables
Organism Organism
updated 13.5 years ago by ▴ 10 • written 13.5 years ago by ▴ 280
0
votes
4
replies
1.1k
views
ABPkgBuilder Error; Again: Solved
Annotation GO Cancer Organism Biobase annotate AnnBuilder PROcess Annotation GO Cancer
updated 18.7 years ago by ★ 7.4k • written 18.7 years ago by ▴ 250
0
votes
6
replies
1.3k
views
Making use of the Apis mellifera assembly 2 data in goSeq
GO Organism Apis mellifera goseq GO Organism Apis mellifera goseq
updated 12.2 years ago by 16k • written 12.2 years ago by ▴ 30
0
votes
5
replies
1.4k
views
AnnBuilder problem with custom List of genes
Annotation Organism probe AnnBuilder Annotation Organism probe AnnBuilder
16.7 years ago claudio.is@libero.it ▴ 210
0
votes
7
replies
926
views
advantages of annotation packages
Annotation GO Organism Annotation GO Organism
updated 11.0 years ago by 25k • written 11.0 years ago by ▴ 30
0
votes
3
replies
837
views
Finding Annotation of CEL file formats
Organism probe Organism probe
updated 15.6 years ago by ★ 3.9k • written 15.6 years ago by ▴ 230
0
votes
3
replies
1.2k
views
defining accessors (cols, keys, keytypes, select) for annotation package built with AnnotationForge package
Annotation GO Organism AnnotationDbi Annotation GO Organism AnnotationDbi
10.7 years ago Sashi ▴ 20
0
votes
2
replies
1.8k
views
pdInfoBuilder fails on Affy's GeneChip Human Transcriptome Array 2.0
BiocViews Annotation Organism biocViews oligo oligoClasses BiocViews BiocViews Annotation
updated 9.0 years ago by ▴ 20 • written 10.3 years ago by ▴ 40
0
votes
7
replies
2.0k
views
Gene Ontology Annotations from Gene Names
Microarray GO Organism PROcess GOstats Microarray GO Organism PROcess GOstats
updated 10.2 years ago by 65k • written 10.3 years ago by ★ 13k
0
votes
2
replies
2.4k
views
Genomic Features - makeTranscriptDbFromGFF()
Organism TranscriptDb GenomicFeatures Organism TranscriptDb GenomicFeatures
updated 9.9 years ago by ★ 7.2k • written 9.9 years ago by ★ 13k
0
votes
2
replies
865
views
AnnBuilder problem?
Organism Biobase annotate AnnBuilder Organism Biobase annotate AnnBuilder
updated 18.5 years ago by ▴ 780 • written 18.5 years ago by ▴ 50
0
votes
4
replies
4.3k
views
An error in oligo: All the CEL files must be of the same type??
BiocViews Annotation Organism biocViews oligo BiocViews BiocViews Annotation Organism
updated 12.9 years ago by ★ 4.3k • written 12.9 years ago by ▴ 20
0
votes
2
replies
1.5k
views
KEGGgraph, error
Organism hgu133a KEGGgraph Organism hgu133a KEGGgraph
updated 15.1 years ago by ▴ 20 • written 15.1 years ago by ▴ 380
0
votes
4
replies
1.2k
views
Creating annotation package with a new database schema
Annotation GO Organism Annotation GO Organism
updated 11.5 years ago by 16k • written 11.5 years ago by ▴ 30
0
votes
3
replies
1.0k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt GenomicFeatures Cancer Organism biomaRt GenomicFeatures
updated 12.2 years ago by ▴ 660 • written 12.2 years ago by ★ 1.6k
0
votes
2
replies
1.4k
views
question on SPIA pavkage application
Organism SPIA Organism SPIA
updated 12.7 years ago by ▴ 150 • written 12.7 years ago by ▴ 380
0
votes
2
replies
2.4k
views
Problem in SPIA: de must be a vector of log2 fold changes. The names of de should be included in the refference array!
Organism limma SPIA Organism limma SPIA
updated 12.3 years ago by ▴ 570 • written 12.3 years ago by ▴ 100
2
votes
4
replies
2.7k
views
makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 10.9 years ago by ★ 3.9k • written 10.9 years ago by ▴ 140
0
votes
4
replies
1.0k
views
missing AnnBuilder parser
Annotation Organism annotate AnnBuilder Annotation Organism annotate AnnBuilder
updated 19.1 years ago by ★ 2.9k • written 19.1 years ago by ★ 1.3k
0
votes
3
replies
1.2k
views
Building the tomato annotation library(Affy)
Annotation Organism AnnBuilder Annotation Organism AnnBuilder
17.0 years ago Groot, Philip de ▴ 630
0
votes
6
replies
1.3k
views
org.*.eg.db problem
Annotation Organism Annotation Organism
updated 13.4 years ago by 6.7k • written 13.4 years ago by ▴ 200
0
votes
2
replies
820
views
GO and Annotation
Annotation GO Organism Annotation GO Organism
updated 20.0 years ago by 65k • written 20.0 years ago by ▴ 300
0
votes
2
replies
2.5k
views
annotation and GO for non-model organism
Microarray Annotation GO Organism Microarray Annotation GO Organism
updated 14.6 years ago by ★ 7.2k • written 14.6 years ago by ▴ 150
0
votes
3
replies
1.1k
views
error in gene2pathway results
Organism gene2pathway Organism gene2pathway
updated 14.1 years ago by ★ 7.2k • written 14.1 years ago by ▴ 420
0
votes
5
replies
1.2k
views
Arabidopsis chromosome location mappings
Organism ath1121501 Organism ath1121501
updated 15.6 years ago by ▴ 10 • written 15.6 years ago by ▴ 330
0
votes
2
replies
1.1k
views
AnnBuilder problem
Organism annotate AnnBuilder Organism annotate AnnBuilder
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 130
0
votes
3
replies
832
views
AnnBuilder URL error.
GO Organism AnnBuilder GO Organism AnnBuilder
updated 19.3 years ago by 65k • written 19.3 years ago by ▴ 540
0
votes
4
replies
8.1k
views
DESeq adjusted pvalue calculation / filtering data
Sequencing Organism qvalue DESeq Sequencing Organism qvalue DESeq
updated 12.4 years ago by ★ 6.0k • written 12.5 years ago by ▴ 20
0
votes
5
replies
1.6k
views
newbie problems with AnnBuilder
Annotation Organism cdf probe affy AnnBuilder Annotation Organism cdf probe affy
updated 15.5 years ago by ★ 7.2k • written 15.5 years ago by ▴ 830
0
votes
3
replies
1.4k
views
RpsiXML issues with latest Biogrid release files
GO Organism Arabidopsis thaliana graph RpsiXML GO Organism Arabidopsis thaliana graph
updated 14.4 years ago by ▴ 340 • written 14.4 years ago by ▴ 60
0
votes
3
replies
1.4k
views
find overlaping genes in ENSEMBL gene ID list and NCBI gene ID list
Organism Bos taurus Organism Bos taurus
updated 13.2 years ago by ★ 7.2k • written 13.2 years ago by ▴ 150
0
votes
3
replies
1.5k
views
TranscriptDb object to RangedData for ChIPpeakAnno
Annotation GO AnnotationData Organism BSgenome TranscriptDb convert BSgenome ChIPpeakAnno
10.8 years ago Alan Smith ▴ 150
0
votes
1
reply
995
views
bug in resourcerer2BioC in Resourcerer package
Organism Resourcerer Organism Resourcerer
updated 19.4 years ago by ★ 2.9k • written 19.4 years ago by ★ 1.3k
0
votes
2
replies
1.1k
views
AnnBuilder problem for mu11ksuba
Organism mu11ksuba annotate limma gcrma matchprobes annaffy AnnBuilder Organism mu11ksuba
updated 18.1 years ago by ▴ 780 • written 18.1 years ago by ★ 1.4k
0
votes
1
reply
852
views
AnnBuilder error
GO Organism annotate AnnBuilder GO Organism annotate AnnBuilder
updated 18.2 years ago by ▴ 780 • written 18.2 years ago by ▴ 510
0
votes
3
replies
1.7k
views
Fwd: Re: which package can do GSEA for no model organism
Annotation GO Organism ASSIGN Annotation GO Organism ASSIGN
updated 14.9 years ago by ▴ 40 • written 14.9 years ago by ▴ 340
0
votes
1
reply
702
views
Error with AnnBuilder ABPkgBuilder
GO Organism annotate AnnBuilder GO Organism annotate AnnBuilder
updated 18.3 years ago by ▴ 780 • written 18.3 years ago by ▴ 20
0
votes
2
replies
1.3k
views
GO over representation analysis
Annotation Pathways GO Organism db0 AnnBuilder PROcess maanova AnnotationDbi Annotation
updated 15.7 years ago by ▴ 220 • written 15.7 years ago by ★ 7.2k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by Chris • 0
Thanks Gordon for the advice! I ran fgsea, gsva and camera(), the most significant pathways are different. For the purpose of finding pathw…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function? by Henrik Bengtsson ★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Comment: fgsea significant result by Chris • 0
Thanks ATpoint! Setting a fixed seed can reproduce the same result. However, if someone else analyze the same data with different seed, the…
Comment: SGSeq: moving toward diffex from SGSeq analysis by Sara • 0
Thank you for your response. I have another question about saving the sgvc result as a CSV file. I would appreciate your help, please. ``` …
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
Awards • All
Popular Question to Ben ▴ 50
Popular Question to Sam ▴ 10
Popular Question to Gordon Smyth 50k
Popular Question to Zainab ▴ 10
Popular Question to Theo ▴ 10
Locations • All
EMBL Heidelberg, 2 minutes ago
France, 8 minutes ago
Melbourne, Australia, 18 minutes ago
United States, 26 minutes ago
United States, 41 minutes ago
Traffic: 476 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6