Showing : mroast • reset
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Interpretation of mroast p-value results for gene set testing of specific molecular signatures using microarray data
mroast camera gene set testing
4.3 years ago svlachavas ▴ 840
4
votes
4
replies
1.7k
views
Interpreting mroast results
mroast limma roast
6.2 years ago SB • 0
1
vote
2
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1.6k
views
Explanation of mroast results for specific biological processes and error with barcodeplot function with a microarray dataset
limma mroast agilent microarrays GO.BP barcodeplot
updated 6.3 years ago by 52k • written 6.3 years ago by ▴ 840
2
votes
3
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1.6k
views
Perform limma based gene-set testing for a two-group comparison in a microarray dataset regarding specific biological processes
limma agilent microarrays mroast fry gene tests gene set testing
updated 6.3 years ago by 52k • written 6.3 years ago by ▴ 840
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2
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1.1k
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mroast/fry with gene weights for most or all genes
limma mroast fry
updated 6.4 years ago by 52k • written 6.4 years ago by ▴ 180
3
votes
3
replies
1.1k
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Conditions for using Fry
limma mroast fry
updated 6.5 years ago by 52k • written 6.5 years ago by • 0
3
votes
4
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1.0k
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Is number of rotations dependent on number of gene sets in mroast?
limma mroast
updated 6.5 years ago by 52k • written 6.5 years ago by • 0
0
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3
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2.1k
views
Barcodeplot limma function using two logFC lists
limma edger barcodeplot gene set enrichment mroast
updated 7.0 years ago by 52k • written 7.0 years ago by • 0
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6
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2.1k
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Different results obtained from mroast and camera from Deseq2 counts
limma camera mroast tximport
updated 7.6 years ago by 67k • written 7.6 years ago by ▴ 40
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2
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1.7k
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using camera/roast/romer to find enriched gene sets from proteomics data
limma proteomics camera mroast romer
updated 8.3 years ago by 52k • written 8.3 years ago by • 0
2
votes
2
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1.6k
views
limma roast/mroast with patient-matched pre-/post- treatment
limma roast mroast block
updated 8.6 years ago by ★ 7.9k • written 8.6 years ago by • 0
2
votes
2
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1.4k
views
Running Roast with Gene Symbols of Curated Genes
mroast roast gene set gene set analysis edgeR
updated 8.7 years ago by 67k • written 8.7 years ago by • 0
0
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3
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1.6k
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ROAST using curated gene sets
edgeR mroast roast
8.7 years ago lattalic • 0
8
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4
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6.4k
views
Differences between edgeR's and limma+voom's implementation of camera/roast/romer
limma edger mroast romer camera
updated 9.0 years ago by ★ 13k • written 9.0 years ago by ▴ 180
7
votes
6
replies
3.4k
views
Interpretation of mroast gene set analysis in R and appropriate use of the function barcode plot regarding a microarray dataset
limma mroast barcodeplot KEGG gene set testing
updated 9.2 years ago by 52k • written 9.2 years ago by ▴ 840
7
votes
9
replies
3.3k
views
limma's mroast and romer
romer mroast limma
updated 9.3 years ago by 52k • written 9.3 years ago by ▴ 10
7
votes
10
replies
1.9k
views
Possible TF binding site enrichment analysis through mroast and conversion problems
TF binding site analysis bioconductor mroast limma promoter analysis
updated 9.6 years ago by ★ 28k • written 9.6 years ago by ▴ 840
5
votes
11
replies
2.1k
views
Appropriate methodologies for using various inputs(GOs, gene-sets) for mroast testing
limma mroast GSEA GO illumina human ht-12 v4
updated 9.6 years ago by ★ 28k • written 9.6 years ago by ▴ 840
0
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1
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1.8k
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Graphic representation of mroast results
mroast visualization
9.7 years ago Elena Serrano ▴ 30
6
votes
10
replies
2.1k
views
Possible implementation of roast/mroast for testing common DE patterns across two different experiments
gene set testing roast mroast differential gene expression bioconductor
9.7 years ago svlachavas ▴ 840
0
votes
4
replies
1.7k
views
Argument gene.data for the correct implementation of fuction pathview of the pathview package
mroast limma pathview pathway analysis
updated 9.8 years ago by ★ 1.6k • written 9.8 years ago by ▴ 840
2
votes
6
replies
1.9k
views
Appropriate use of the function mroast to find KEGG pathways for differential expression
mroast limma pathway analysis differential gene expression affymetrix
9.8 years ago svlachavas ▴ 840
22 results • Page 1 of 1
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Comment: Identifying potentially associated gene set to drug response using GSVA by kl2023gege • 0
Thanks for sharing. You gotta check out Sprunki Phase Games on [Sprunki Phase](https://sprunkiphase.net). It's a wild ride of tunes and tw…
Answer: I am having issues with bowtie2_build by James W. MacDonald 67k
Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…
Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k
Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…
Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10
I see. Thank you ATpoint!
Votes
Answer: Unable to install nloptr
Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?
C: How does edgeR cpm function calculate log(CPM) values?
Answer: Selection of correct coefficients or contrasts in DESeq2
Answer: Selection of correct coefficients or contrasts in DESeq2
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