Showing : BiSeq • reset
2
votes
15
replies
3.5k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.8 years ago • updated 9.7 years ago mnaymik ▴ 10
1
vote
2
replies
2.8k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 9.3 years ago by ★ 6.5k • written 9.3 years ago by ▴ 660
0
votes
5
replies
2.3k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
9.8 years ago • updated 9.7 years ago maria.maqueda • 0
0
votes
6
replies
2.1k
views
BiSeq trimClusters error
biseq error trimClusters
updated 9.0 years ago by ▴ 130 • written 9.0 years ago by • 0
4
votes
4
replies
2.1k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 9.2 years ago by 67k • written 9.2 years ago by ▴ 460
0
votes
3
replies
1.9k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 11.0 years ago by ▴ 130 • written 11.0 years ago by ▴ 330
1
vote
0
replies
1.9k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
9.1 years ago enricoferrero ▴ 660
2
votes
10
replies
1.7k
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 4.6 years ago by 67k • written 4.6 years ago by • 0
0
votes
3
replies
1.5k
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 8.1 years ago by ▴ 130 • written 8.1 years ago by • 0
0
votes
1
reply
1.3k
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
7.8 years ago l.eijssen • 0
0
votes
1
reply
1.3k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 7.1 years ago by 52k • written 7.1 years ago by • 0
2
votes
8
replies
1.3k
views
Reason for NA in table after beta regression?
biseq beta regression
4.6 years ago akhaira • 0
0
votes
1
reply
1.2k
views
Biseq installation error
biseq package installation r
updated 6.1 years ago by 25k • written 6.1 years ago by • 0
0
votes
1
reply
1.2k
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
4.5 years ago akhaira • 0
0
votes
0
replies
1.1k
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
6.5 years ago spr ▴ 10
0
votes
0
replies
931
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
4.5 years ago i.s.castanho • 0
0
votes
0
replies
910
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
6.0 years ago mira • 0
0
votes
1
reply
905
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
4.6 years ago akhaira • 0
0
votes
1
reply
831
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
3.0 years ago thomas.koefoed • 0
0
votes
1
reply
823
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
4.7 years ago AishaD • 0
0
votes
1
reply
777
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
4.8 years ago i.s.castanho • 0
1
vote
0
replies
754
views
Understanding ColData in BiSeq
BiSeq Coldata
4.7 years ago akhaira • 0
0
votes
0
replies
603
views
What values to include for predictedMethNull in BiSeq
Biseq
4.6 years ago akhaira • 0
23 results • Page 1 of 1
Recent ...
Replies
Answer: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Following the discussion of this post, the package [gDNAx](https://bioconductor.org/packages/gDNAx) has been fixed in devel and release 1.4…
Answer: Selection of correct coefficients or contrasts in DESeq2 by James W. MacDonald 67k
Using R's model formulation for three-way interactions is probably not the way to go here. Or at least I wouldn't do it that way. An easier…
Comment: How to generate circular cnetplot and color nodes and edges in the same plot ? by Blandine • 0
Thank you so much ! It's working !
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by James W. MacDonald 67k
Yes. If you have the Illumina IDs, then all the annotation data that `cpg.annotate` uses will be based on hg19. It doesn't matter if TCGA l…
Comment: Recount3 data correspond to TCGA data by Leonardo Collado Torres ★ 1.1k
Thanks @fep29! ^^
Votes
A: DESeq2 interaction term
Comment: Recount3 data correspond to TCGA data
Answer: DESeq2- merging technical vs biological replicates
Answer: SingleCellExperiment convenience function for metadata+expression?
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
Awards • All
Popular Question to ajglajd gajgflkadfj gl • 0
Popular Question to Robert Castelo ★ 3.4k
Popular Question to Robert Ivanek ▴ 750
Popular Question to shepherl 4.1k
Popular Question to Martin Morgan 25k
Locations • All
United States, 1 hour ago
WEHI, Melbourne, Australia, 3 hours ago
The city by the bay, 3 hours ago
Denmark, 3 hours ago
Belgium, 5 hours ago
Traffic: 626 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