Showing : ReportingTools • reset
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Having issues mapping gene Ids during ReportingTools::publish() from Bioconductor.
ReportingTools RNA-Seq RMarkdown
updated 3.6 years ago by 65k • written 3.6 years ago by ▴ 20
1
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4
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847
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ReportingTools publish(): no image when .modifyDF argument is included
ReportingTools
updated 5.1 years ago by 65k • written 5.1 years ago by • 0
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1.6k
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ReportingTools: Error using packet 1 arguments must have same length
reportingtools
5.4 years ago mmokrejs • 0
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629
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Changing vertical scale to linear for expression reporting of DESeqDataSet
reportingtools deseq2
5.6 years ago trebbiano • 0
3
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7
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1.9k
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ReportingTools Segmentation fault
reportingtools reporting tools
updated 6.0 years ago by ▴ 10 • written 6.0 years ago by ▴ 20
2
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2
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1.1k
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How to add more columns to ReportingTools output?
reportingtools microarray annotation differential expression differential analysis
updated 6.3 years ago by 65k • written 6.4 years ago by • 0
0
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0
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1.6k
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Select what conditionsto graph in Report tools with Deseq containing multiple conditions
deseq2 ggplot2 reportingtools
7.4 years ago abass.conteh • 0
0
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3
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1.0k
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Error when installing ReportingTools
reportingtools
7.7 years ago Asma rabe ▴ 290
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4
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1.4k
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Error in GOFrame due to NA for unsupported organism (Gene Ontology)
reportingtools annotationhub gostats
updated 7.8 years ago by 65k • written 7.8 years ago by ▴ 20
2
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4
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1.2k
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ResrtingTools include pvalue NA
reportingtools deseq2 NA pvalue
updated 7.8 years ago by 41k • written 7.8 years ago by ▴ 10
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2
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1.7k
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Generating database with non model species to be use by ReportingTools
reportingtools annotationdbi annotationhub ensembldb
updated 7.8 years ago by ★ 2.0k • written 7.8 years ago by ▴ 20
0
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8
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1.6k
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ReportingTools include pvalue NA and comparissons
R reportingtools deseq2 pvalue coef
updated 7.8 years ago by 41k • written 7.8 years ago by ▴ 10
0
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1
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1.5k
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DESeq2 followed by Reporting tools lists blank ensemble gene ID's and symbols but has image, logFC and p-value intact in HTML file
deseq2 rnaseq reportingtools
updated 8.0 years ago by 41k • written 8.0 years ago by • 0
1
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4
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1.1k
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Methods in ReportingTools
reportingtools
updated 8.6 years ago by ▴ 70 • written 8.6 years ago by • 0
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1.2k
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Change column width in ReportingTools
reportingtools
8.6 years ago benedikt.athmer • 0
1
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1
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1.1k
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How to add search functions and additional fields to the html file of DESeq2 results created with ReportingTools
ReportingTools deseq2 hwriter
updated 8.8 years ago by 65k • written 8.8 years ago by ▴ 30
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2
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1.4k
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hwriter or reportingtools: open link in new tab?
hyperlink ReportingTools hwriter
9.0 years ago Wade Davis ▴ 60
2
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3
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1.5k
views
HTMLReport with Ensembl IDs, with multifactorial design
DESeq2 ReportingTools
updated 9.1 years ago by 65k • written 9.1 years ago by ▴ 150
4
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6
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2.7k
views
HTMLReport of DESeq2 results with Ensembl Gene Ids
reportingtools publish deseq2
updated 9.1 years ago by ▴ 150 • written 9.3 years ago by • 0
1
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6
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1.9k
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Problem on annotation of Deseq2 on reportingtools
Deseq2 reportingtools
updated 9.4 years ago by ▴ 70 • written 9.4 years ago by ▴ 40
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2
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1.1k
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ReportingTools does not work with PFAMHyperGResult object
reportingtools
updated 9.6 years ago by 1.6k • written 9.6 years ago by • 0
0
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5
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2.6k
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Issues about how to filter and annotate the MoGene-2_0-st and MoEx-1_0-st-v1 array probe sets
Annotation probe annotate annaffy oligo ReportingTools Annotation probe annotate annaffy
updated 9.8 years ago by ▴ 160 • written 9.9 years ago by 65k
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5
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1.7k
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ReportingTools error message
DESeq ReportingTools DESeq2 DESeq ReportingTools DESeq2
9.9 years ago Assa Yeroslaviz ★ 1.5k
0
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0
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1.2k
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KEGG pathway analysis with ReportingTools
Pathways GO ReportingTools Pathways GO ReportingTools
10.0 years ago Mayte Suarez-Farinas ▴ 510
0
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3
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1.8k
views
ReportingTools and gene annotation
Annotation GO cycle ReportingTools DESeq2 Annotation GO cycle ReportingTools DESeq2
updated 10.2 years ago by 65k • written 10.2 years ago by ▴ 340
0
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7
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2.7k
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[ReportingTools] and DESeq2 results, publish DESeqDataSet using resultsNames other than the default
Sequencing ReportingTools DESeq2 Sequencing ReportingTools DESeq2
updated 10.2 years ago by 65k • written 10.2 years ago by ▴ 30
6
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1
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3.0k
views
[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
Sequencing Annotation convert biomaRt ReportingTools DESeq2 Sequencing Annotation convert
updated 9.3 years ago by ▴ 370 • written 10.4 years ago by ▴ 160
0
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2
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1.6k
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Question about ReportingTools used with DESeq2
GO BSgenome BSgenome ReportingTools DESeq2 GO BSgenome BSgenome ReportingTools DESeq2
updated 10.4 years ago by 65k • written 10.4 years ago by ▴ 80
0
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1
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1.1k
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ReportingTools package
ReportingTools ReportingTools
updated 10.5 years ago by ▴ 10 • written 10.5 years ago by ▴ 160
0
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0
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846
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ReportingTools: formatting html report
Alignment ReportingTools Alignment ReportingTools
10.8 years ago Gabriel Becker ▴ 70
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0
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2.0k
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emacs org mode html export using jQuery DataTables (WAS: new package for generating interactive HTML reports)
Network limma GOstats GSEAlm edgeR ReportingTools Network limma GOstats GSEAlm edgeR
11.3 years ago Malcolm Cook ★ 1.6k
0
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12
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2.2k
views
new package for generating interactive HTML reports
Network limma GOstats GSEAlm edgeR ReportingTools Network limma GOstats GSEAlm edgeR
updated 11.3 years ago by ★ 1.6k • written 11.3 years ago by ▴ 20
32 results • Page 1 of 1
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Comment: Input Question for deseq.r by ATpoint ★ 4.0k
It is unclear what "deseq.r" is. It is not part of DESeq2, and almost certainly no part of RSeqAn. Please add details, and keep in mind tha…
Answer: DESEQ2 output gives multiple groups when only 2 groups are present by ATpoint ★ 4.0k
In the first PCA plot there is almost certainly some hidden character like whitespaces in the column from colData that encodes this group. …
Answer: A ComBat-seq issue: the covariates are confounded by ATpoint ★ 4.0k
```r > table(batch, group) group batch egfr gfp her2 1 0 12 5 2 6 6 0 ``` All of her2 is batch2, all of egfr i…
Comment: DESeq2 setting significant p-value by Dev • 0
after running DESeq2 does it sort the value on the basis of pvalue, or anything, or does it give the data back in the input format I have …
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
But wouldn't this result in a different gene set for each analysis stratification? How can you then compare if maybe gene x comes up in Tim…
Votes
Comment: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
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