Showing : DMR • reset
7
votes
11
replies
3.6k
views
t-statistic cutoff for finding DMRs with bsseq
bsseq dmr ttest pvalue
updated 8.2 years ago by 65k • written 8.2 years ago by ▴ 660
2
votes
10
replies
1.2k
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 3.9 years ago by 65k • written 3.9 years ago by • 0
1
vote
4
replies
4.2k
views
bumphunter output clarification
bumphunter DMR DMR analysis minfi bioconductor
updated 7.3 years ago by ▴ 60 • written 7.3 years ago by • 0
0
votes
4
replies
916
views
Fix regions for bumphunter
bumphunter DMR methylation minfi
4.3 years ago • updated 4.2 years ago i.s.brorson • 0
1
vote
3
replies
1.4k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 5 months ago by ▴ 730 • written 3.0 years ago by • 0
2
votes
2
replies
1.5k
views
dmrseq: cannot adjust for a covariate
dmrseq dmr dmrs bisulfite methylation
updated 6.2 years ago by ▴ 60 • written 6.3 years ago by • 0
1
vote
2
replies
2.5k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 8.5 years ago by ★ 6.5k • written 8.5 years ago by ▴ 660
0
votes
2
replies
1.2k
views
Assessing DMRs between treatment groups: subtracting control group DMRs to account for "baseline" methylation
illumina methylationepic 450k limma minfi dmr analysis dmr
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
0
votes
2
replies
1.4k
views
Bumphunter error: subscript out of bounds
bumphunter DMR doparallel multicore
updated 9 months ago by • 0 • written 6.0 years ago by • 0
0
votes
2
replies
1.6k
views
Use ChAMP to Find Differential Methylation Regions (DMR)
ChAMP DMR champ.DMR
5.6 years ago yuabrahamliu • 0
0
votes
2
replies
854
views
Bumphunter output "regions" of 1 probe (L =1)
DMR bumphunter EPIC chip
4.2 years ago i.s.brorson • 0
0
votes
1
reply
1.5k
views
DMRcate: Scaling factor for bandwidth
dmrcate dmr analysis dmr
updated 7.3 years ago by ▴ 180 • written 7.3 years ago by ▴ 10
0
votes
1
reply
528
views
Subset count data in DGEList using edgeR/DESeq2
edgeR DMR
updated 15 months ago by 42k • written 15 months ago by • 0
0
votes
1
reply
802
views
the function DMR in ChAMP package
ChAMP DMR
updated 3.9 years ago by ▴ 280 • written 3.9 years ago by • 0
0
votes
1
reply
732
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
3.8 years ago akhaira • 0
1
vote
1
reply
1.8k
views
DMR Plot
dmr MethylationArrayData DMRcatedata
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
0
votes
0
replies
752
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
3.8 years ago i.s.castanho • 0
1
vote
0
replies
1.3k
views
How to find DMRs using probe-lasso from ChAMP using minfi data
ChAMP minfi DMR dmr analysis lasso
8.6 years ago AST ▴ 60
1
vote
0
replies
1.7k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
8.4 years ago enricoferrero ▴ 660
0
votes
0
replies
715
views
MethylSig is not giving DMRs with no replicates
methylsig no replicates dmr
5.8 years ago nilaycan • 0
20 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot connect to ExperimentHub server by Jiayu • 0
Many thanks and it also resolved the same issue for me!
Comment: Help with running egsea() by Chris • 0
I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Awards • All
Popular Question to Gyan Prakash Mishra ▴ 10
Popular Question to Gordon Smyth 50k
Popular Question to WouterDeCoster ▴ 130
Scholar to Michael Love 42k
Popular Question to Malcolm Cook ★ 1.6k
Locations • All
United States, just now
WEHI, Melbourne, Australia, 16 minutes ago
Sweden, 25 minutes ago
United Kingdom, 25 minutes ago
The city by the bay, 44 minutes ago
Traffic: 383 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