Showing : Biseq • reset
4
votes
4
replies
1.2k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 6.6 years ago by 60k • written 6.6 years ago by ▴ 460
2
votes
15
replies
1.9k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
7.1 years ago • updated 7.0 years ago mnaymik ▴ 10
2
votes
8
replies
344
views
Reason for NA in table after beta regression?
biseq beta regression
23 months ago akhaira • 0
2
votes
10
replies
312
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 23 months ago by 60k • written 23 months ago by • 0
1
vote
2
replies
1.8k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 6.6 years ago by 6.5k • written 6.6 years ago by ▴ 610
1
vote
0
replies
1.2k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
6.5 years ago enricoferrero ▴ 610
1
vote
0
replies
254
views
Understanding ColData in BiSeq
BiSeq Coldata
24 months ago akhaira • 0
0
votes
1
reply
371
views
Biseq installation error
biseq package installation r
updated 3.4 years ago by 25k • written 3.4 years ago by • 0
0
votes
0
replies
371
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
3.3 years ago mira • 0
0
votes
1
reply
194
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
2.2 years ago i.s.castanho • 0
0
votes
1
reply
214
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
2.0 years ago AishaD • 0
0
votes
0
replies
168
views
What values to include for predictedMethNull in BiSeq
Biseq
23 months ago akhaira • 0
0
votes
1
reply
269
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
23 months ago • updated 22 months ago akhaira • 0
0
votes
1
reply
321
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
22 months ago akhaira • 0
0
votes
0
replies
244
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
22 months ago i.s.castanho • 0
0
votes
3
replies
1.3k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 8.3 years ago by ▴ 130 • written 8.3 years ago by ▴ 330
0
votes
1
reply
134
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
3 months ago thomas.koefoed • 0
0
votes
5
replies
1.4k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
7.1 years ago maria.maqueda • 0
0
votes
6
replies
1.3k
views
BiSeq trimClusters error
biseq error trimClusters
updated 6.3 years ago by ▴ 130 • written 6.4 years ago by • 0
0
votes
3
replies
812
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 5.4 years ago by ▴ 130 • written 5.4 years ago by • 0
0
votes
1
reply
675
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
5.1 years ago l.eijssen • 0
0
votes
1
reply
589
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
0
votes
0
replies
510
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
3.8 years ago spr ▴ 10
23 results • Page 1 of 1
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Comment: Confused about the design matrix in edgeR: How to tell R to consider one level a by Mohamed • 0
Thanks a lot, will try this and see.
Answer: Confused about the design matrix in edgeR: How to tell R to consider one level a by Steve Lianoglou 13k
> My question is why the design matrix named its last column ' StatusControl' and not 'statustreated' ? It's because the Intercept is th…
Comment: Italicise by Kevin Blighe 3.5k
Hi, can you compare the contents of your variable, `lab_italics` , versus those of the variable (`selectLab_italics`) that is produced in m…
Comment: Need help for ProStaR Stand-alone install by Wang • 0
Hi, I have installed the "Prostar" package, and loaded in my rstudio work session. But, when I trying to use the Prostar() for open a GUI …
Answer: Discrepancy between plot colours during exomeCopy tutorial by Michael Love 37k
I’m not sure why the plot looks this way. You may want to look at one sample at a time. Also note there are more developed tools, I haven’t…
Votes
Answer: biomaRt error unable to fix: need help troubleshooting
Answer: edgeR : results from goana and kegga functions show opposite sig. p-value
Answer: paired analysis : return data matrix with indvidual/subject effects eliminated.
DESeq2: likelihood ratio test interpretation, multifactor
Answer: edgeR : results from goana and kegga functions show opposite sig. p-value
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