Showing : BiSeq • reset
2
votes
15
replies
3.0k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.0 years ago • updated 8.9 years ago mnaymik ▴ 10
2
votes
10
replies
1.1k
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
2
votes
8
replies
918
views
Reason for NA in table after beta regression?
biseq beta regression
3.8 years ago akhaira • 0
0
votes
6
replies
1.9k
views
BiSeq trimClusters error
biseq error trimClusters
updated 8.2 years ago by ▴ 130 • written 8.3 years ago by • 0
0
votes
5
replies
2.0k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
9.0 years ago maria.maqueda • 0
4
votes
4
replies
1.9k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 460
0
votes
3
replies
1.7k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 10.2 years ago by ▴ 130 • written 10.2 years ago by ▴ 330
0
votes
3
replies
1.3k
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 7.3 years ago by ▴ 130 • written 7.3 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
1
reply
627
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
2.2 years ago thomas.koefoed • 0
0
votes
1
reply
1.1k
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
7.1 years ago l.eijssen • 0
0
votes
1
reply
1.1k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 6.3 years ago by 50k • written 6.3 years ago by • 0
0
votes
1
reply
915
views
Biseq installation error
biseq package installation r
updated 5.3 years ago by 25k • written 5.3 years ago by • 0
0
votes
1
reply
601
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
4.1 years ago i.s.castanho • 0
0
votes
1
reply
630
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
3.9 years ago AishaD • 0
0
votes
1
reply
722
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
3.8 years ago akhaira • 0
0
votes
1
reply
913
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
3.8 years ago akhaira • 0
0
votes
0
replies
467
views
What values to include for predictedMethNull in BiSeq
Biseq
3.8 years ago akhaira • 0
0
votes
0
replies
896
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
5.7 years ago spr ▴ 10
0
votes
0
replies
743
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
1.6k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
8.4 years ago enricoferrero ▴ 660
1
vote
0
replies
570
views
Understanding ColData in BiSeq
BiSeq Coldata
3.9 years ago akhaira • 0
0
votes
0
replies
727
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
5.2 years ago mira • 0
23 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide by Gordon Smyth 50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k
What do you mean by 'the information'? Do you have things in particular that you want?
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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