Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
mroast
•
reset
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
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
9.0 years ago
svlachavas
▴ 830
8
votes
4
replies
5.6k
views
Differences between edgeR's and limma+voom's implementation of camera/roast/romer
limma
edger
mroast
romer
camera
updated 8.2 years ago by
Steve Lianoglou
★ 13k • written 8.2 years ago by
maltethodberg
▴ 180
0
votes
4
replies
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
Luo Weijun
★ 1.6k • written 9.1 years ago by
svlachavas
▴ 830
4
votes
4
replies
1.4k
views
Interpreting mroast results
mroast
limma
roast
5.4 years ago
SB
• 0
7
votes
9
replies
3.0k
views
limma's mroast and romer
romer
mroast
limma
updated 8.6 years ago by
Gordon Smyth
50k • written 8.6 years ago by
Ilario De Toma
▴ 10
0
votes
3
replies
1.4k
views
ROAST using curated gene sets
edgeR
mroast
roast
7.9 years ago
lattalic
• 0
0
votes
3
replies
1.9k
views
Barcodeplot limma function using two logFC lists
limma
edger
barcodeplot
gene set enrichment
mroast
updated 6.3 years ago by
Gordon Smyth
50k • written 6.3 years ago by
srmaruyama
• 0
3
votes
3
replies
918
views
Conditions for using Fry
limma
mroast
fry
updated 5.7 years ago by
Gordon Smyth
50k • written 5.7 years ago by
siajunren
• 0
3
votes
4
replies
831
views
Is number of rotations dependent on number of gene sets in mroast?
limma
mroast
updated 5.7 years ago by
Gordon Smyth
50k • written 5.7 years ago by
siajunren
• 0
0
votes
2
replies
917
views
mroast/fry with gene weights for most or all genes
limma
mroast
fry
updated 5.6 years ago by
Gordon Smyth
50k • written 5.6 years ago by
maltethodberg
▴ 180
2
votes
3
replies
1.4k
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 5.6 years ago by
Gordon Smyth
50k • written 5.6 years ago by
svlachavas
▴ 830
1
vote
2
replies
1.3k
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 5.5 years ago by
Gordon Smyth
50k • written 5.5 years ago by
svlachavas
▴ 830
2
votes
2
replies
1.3k
views
limma roast/mroast with patient-matched pre-/post- treatment
limma
roast
mroast
block
updated 7.8 years ago by
Ryan C. Thompson
★ 7.9k • written 7.8 years ago by
barbara.shih
• 0
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
Aaron Lun
★ 28k • written 8.9 years ago by
svlachavas
▴ 830
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 8.9 years ago by
Aaron Lun
★ 28k • written 8.9 years ago by
svlachavas
▴ 830
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
Gordon Smyth
50k • written 8.4 years ago by
svlachavas
▴ 830
2
votes
2
replies
1.2k
views
Running Roast with Gene Symbols of Curated Genes
mroast
roast
gene set
gene set analysis
edgeR
updated 7.9 years ago by
James W. MacDonald
65k • written 7.9 years ago by
lattalic
• 0
0
votes
2
replies
1.5k
views
using camera/roast/romer to find enriched gene sets from proteomics data
limma
proteomics
camera
mroast
romer
updated 7.6 years ago by
Gordon Smyth
50k • written 7.6 years ago by
natalia.pietrosemoli
• 0
0
votes
6
replies
1.8k
views
Different results obtained from mroast and camera from Deseq2 counts
limma
camera
mroast
tximport
updated 6.8 years ago by
James W. MacDonald
65k • written 6.8 years ago by
jarod_v6@libero.it
▴ 40
0
votes
1
reply
1.5k
views
Graphic representation of mroast results
mroast
visualization
8.9 years ago
Elena Serrano
▴ 30
0
votes
0
replies
622
views
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
22 results • Page
1 of 1
Recent ...
Replies
Answer: Store output of matchPWM()
by
James W. MacDonald
65k
Something like this? ``` ind <- as.logical(sapply(hitlist, length)) out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) …
Answer: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
James W. MacDonald
65k
You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…
Answer: SGSeq: moving toward diffex from SGSeq analysis
by
Leonard Goldstein
▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma
by
Chris
• 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Awards
• All
Popular Question
to
Ian D.
▴ 70
Popular Question
to
junhui.li11
• 0
Scholar
to
James W. MacDonald
65k
Popular Question
to
jeffrey.maurer
• 0
Centurion
to
Chris
• 0
Locations
• All
United States,
12 minutes ago
Worcester,
14 minutes ago
United States,
20 minutes ago
Argentina,
26 minutes ago
United States,
38 minutes ago
Traffic: 666 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