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
3.6 years ago svlachavas ▴ 830
4
votes
4
replies
1.4k
views
Interpreting mroast results
mroast limma roast
5.4 years ago SB • 0
1
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2
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1.3k
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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 5.5 years ago by 50k • written 5.5 years ago by ▴ 830
2
votes
3
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1.4k
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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 5.5 years ago by 50k • written 5.5 years ago by ▴ 830
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2
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909
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mroast/fry with gene weights for most or all genes
limma mroast fry
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 170
3
votes
3
replies
913
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Conditions for using Fry
limma mroast fry
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
3
votes
4
replies
819
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Is number of rotations dependent on number of gene sets in mroast?
limma mroast
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
0
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3
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1.9k
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Barcodeplot limma function using two logFC lists
limma edger barcodeplot gene set enrichment mroast
updated 6.2 years ago by 50k • written 6.2 years ago by • 0
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6
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1.8k
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Different results obtained from mroast and camera from Deseq2 counts
limma camera mroast tximport
updated 6.8 years ago by 65k • written 6.8 years ago by ▴ 40
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2
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1.5k
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using camera/roast/romer to find enriched gene sets from proteomics data
limma proteomics camera mroast romer
updated 7.6 years ago by 50k • written 7.6 years ago by • 0
2
votes
2
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1.3k
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limma roast/mroast with patient-matched pre-/post- treatment
limma roast mroast block
updated 7.8 years ago by ★ 7.9k • written 7.8 years ago by • 0
2
votes
2
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1.2k
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Running Roast with Gene Symbols of Curated Genes
mroast roast gene set gene set analysis edgeR
updated 7.9 years ago by 65k • written 7.9 years ago by • 0
0
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3
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1.4k
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ROAST using curated gene sets
edgeR mroast roast
7.9 years ago lattalic • 0
8
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4
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5.5k
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Differences between edgeR's and limma+voom's implementation of camera/roast/romer
limma edger mroast romer camera
updated 8.2 years ago by ★ 13k • written 8.2 years ago by ▴ 170
7
votes
6
replies
3.2k
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 8.4 years ago by 50k • written 8.4 years ago by ▴ 830
7
votes
9
replies
2.9k
views
limma's mroast and romer
romer mroast limma
updated 8.6 years ago by 50k • written 8.6 years ago by ▴ 10
7
votes
10
replies
1.6k
views
Possible TF binding site enrichment analysis through mroast and conversion problems
TF binding site analysis bioconductor mroast limma promoter analysis
updated 8.8 years ago by ★ 28k • written 8.8 years ago by ▴ 830
5
votes
11
replies
1.8k
views
Appropriate methodologies for using various inputs(GOs, gene-sets) for mroast testing
limma mroast GSEA GO illumina human ht-12 v4
updated 8.9 years ago by ★ 28k • written 8.9 years ago by ▴ 830
0
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1
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1.5k
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Graphic representation of mroast results
mroast visualization
8.9 years ago Elena Serrano ▴ 30
6
votes
10
replies
1.8k
views
Possible implementation of roast/mroast for testing common DE patterns across two different experiments
gene set testing roast mroast differential gene expression bioconductor
8.9 years ago svlachavas ▴ 830
0
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4
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1.5k
views
Argument gene.data for the correct implementation of fuction pathview of the pathview package
mroast limma pathview pathway analysis
updated 9.1 years ago by ★ 1.6k • written 9.1 years ago by ▴ 830
2
votes
6
replies
1.6k
views
Appropriate use of the function mroast to find KEGG pathways for differential expression
mroast limma pathway analysis differential gene expression affymetrix
9.1 years ago svlachavas ▴ 830
22 results • Page 1 of 1
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Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by shuwangxinze1996 • 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
I am not sure how your comment helps here?
Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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