Showing : biseq • reset
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
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
8
replies
909
views
Reason for NA in table after beta regression?
biseq beta regression
3.8 years ago akhaira • 0
2
votes
10
replies
1.1k
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 3.8 years ago by 65k • written 3.8 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
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
565
views
Understanding ColData in BiSeq
BiSeq Coldata
3.9 years ago akhaira • 0
0
votes
1
reply
910
views
Biseq installation error
biseq package installation r
updated 5.3 years ago by 25k • written 5.3 years ago by • 0
0
votes
0
replies
724
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
5.2 years ago mira • 0
0
votes
1
reply
599
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
623
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
0
replies
465
views
What values to include for predictedMethNull in BiSeq
Biseq
3.8 years ago akhaira • 0
0
votes
1
reply
721
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
3.8 years ago akhaira • 0
0
votes
1
reply
911
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
740
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
3.7 years ago i.s.castanho • 0
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
1
reply
622
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
2.2 years ago thomas.koefoed • 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
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
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
0
votes
1
reply
1.1k
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
7.0 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
0
replies
891
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
5.7 years ago spr ▴ 10
23 results • Page 1 of 1
Recent ...
Replies
Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10
Thank you for your answer; However, I have some follow-up question. Following up in In your [1-2-3 article][1], you say that > "... the …
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
Comment: Error retrieving ensembl gene id using biomaRt... by James W. MacDonald 65k
Or that. ;-D
Answer: Error retrieving ensembl gene id using biomaRt... by Mike Smith ★ 6.5k
I think you have the assignment operator (`<-`) the wrong way round. It should be `df_biomrt_tmp <- getBM(...`
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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