Showing : Biseq • reset
0
votes
1
reply
796
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
2.8 years ago thomas.koefoed • 0
0
votes
0
replies
907
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
4.4 years ago i.s.castanho • 0
0
votes
1
reply
1.1k
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
4.4 years ago akhaira • 0
0
votes
1
reply
875
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
4.4 years ago akhaira • 0
2
votes
8
replies
1.2k
views
Reason for NA in table after beta regression?
biseq beta regression
4.4 years ago akhaira • 0
0
votes
0
replies
587
views
What values to include for predictedMethNull in BiSeq
Biseq
4.4 years ago akhaira • 0
2
votes
10
replies
1.6k
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 4.5 years ago by 67k • written 4.5 years ago by • 0
1
vote
0
replies
720
views
Understanding ColData in BiSeq
BiSeq Coldata
4.5 years ago akhaira • 0
0
votes
1
reply
803
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
4.6 years ago AishaD • 0
0
votes
1
reply
758
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
4.7 years ago i.s.castanho • 0
0
votes
0
replies
885
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
5.8 years ago mira • 0
0
votes
1
reply
1.1k
views
Biseq installation error
biseq package installation r
updated 5.9 years ago by 25k • written 5.9 years ago by • 0
0
votes
0
replies
1.1k
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
6.3 years ago spr ▴ 10
0
votes
1
reply
1.3k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 6.9 years ago by 52k • written 6.9 years ago by • 0
0
votes
1
reply
1.3k
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
7.7 years ago l.eijssen • 0
0
votes
3
replies
1.5k
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 7.9 years ago by ▴ 130 • written 7.9 years ago by • 0
0
votes
6
replies
2.1k
views
BiSeq trimClusters error
biseq error trimClusters
updated 8.8 years ago by ▴ 130 • written 8.9 years ago by • 0
1
vote
0
replies
1.8k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
9.0 years ago enricoferrero ▴ 660
4
votes
4
replies
2.1k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 9.1 years ago by 67k • written 9.1 years ago by ▴ 460
1
vote
2
replies
2.8k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 9.1 years ago by ★ 6.5k • written 9.1 years ago by ▴ 660
2
votes
15
replies
3.5k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.6 years ago mnaymik ▴ 10
0
votes
5
replies
2.3k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
9.6 years ago maria.maqueda • 0
0
votes
3
replies
1.9k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 10.8 years ago by ▴ 130 • written 10.8 years ago by ▴ 330
23 results • Page 1 of 1
Recent ...
Replies
Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k
You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…
Comment: contrast matrix design for a continuous variable by dtzhu337 • 0
Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…
Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k
Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …
Comment: fail to use addPerROIQC in Rmd by liu.n • 0
That's odd. So it can run successfully within markdown but would be failed when knitting?
Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0
> dim(spe) [1] 19962 425
Votes
Answer: contrast matrix design for a continuous variable
A: What's the difference between p.adjust and qvalue?
Answer: DESeq2- merging technical vs biological replicates
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
Awards • All
Popular Question to Ou, Jianhong ★ 1.3k
Popular Question to mikat • 0
Popular Question to joseph.joonsang • 0
Popular Question to Hans-Ulrich Klein ▴ 330
Popular Question to shepherl 4.1k
Locations • All
United States, 16 minutes ago
Norway, 24 minutes ago
United States, 51 minutes ago
United States, 59 minutes ago
France, 1 hour ago
Traffic: 817 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