Showing : Biseq • reset
0
votes
1
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130
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Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
3 months ago thomas.koefoed • 0
0
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0
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240
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
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1
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313
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How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
22 months ago akhaira • 0
0
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1
reply
263
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
22 months ago akhaira • 0
2
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8
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335
views
Reason for NA in table after beta regression?
biseq beta regression
22 months ago akhaira • 0
0
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0
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165
views
What values to include for predictedMethNull in BiSeq
Biseq
22 months ago akhaira • 0
2
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10
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298
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 23 months ago by 59k • written 23 months ago by • 0
1
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0
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249
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Understanding ColData in BiSeq
BiSeq Coldata
23 months ago akhaira • 0
0
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1
reply
207
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
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1
reply
190
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
2.1 years ago i.s.castanho • 0
0
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0
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365
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
3.3 years ago mira • 0
0
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1
reply
367
views
Biseq installation error
biseq package installation r
updated 3.4 years ago by 25k • written 3.4 years ago by • 0
0
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0
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508
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
3.8 years ago spr ▴ 10
0
votes
1
reply
585
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
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1
reply
675
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
5.1 years ago l.eijssen • 0
0
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3
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805
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
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6
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1.3k
views
BiSeq trimClusters error
biseq error trimClusters
updated 6.3 years ago by ▴ 130 • written 6.3 years ago by • 0
1
vote
0
replies
1.2k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
6.4 years ago enricoferrero ▴ 610
4
votes
4
replies
1.2k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 6.5 years ago by 59k • written 6.5 years ago by ▴ 460
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
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
0
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5
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1.4k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq RRBS SAAP-BS coverage
7.1 years ago • updated 7.0 years ago maria.maqueda • 0
0
votes
3
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1.3k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 8.3 years ago by ▴ 130 • written 8.3 years ago by ▴ 330
23 results • Page 1 of 1
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Replies
Comment: featureCounts: 0% successfully assigned fragments by ATpoint ★ 1.2k
Lack of any details, not appreciated. Anyway, are chromosome identifiers the same between BAM and GTF?
Comment: strange results from differential methylation analysis using limma by nabiyogesh ▴ 10
Could you please help me how to make Methylation data input file like should I take CpG probes as rows or column? Many thanks
Comment: Ensembl plants at annotationHub? by karenserrano • 0
Hi Johannes, Could I request the same EnsDb creation for Medicago truncatula? Thank you very much, Karen
Answer: EnrichGO not working with db created from annotationhub by Guido Hooiveld ★ 3.2k
Did you notice the first message that was returned after you ran `enrichGO()`? Thus: `--> No gene can be mapped....` This basically means…
Comment: DiffBind GreyListChIP error: Error: BiocParallel errors by ksong • 0
Hello my friends, I have exactly the same issue. May I ask if you have already solve this problem? I have tried `library(BiocParallel) regi…
Votes
Comment: Separate exogenous from endogenous transcripts using Salmon RNAseq DTU
C: Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with o
Comment: Diffbind dba$binding slot finding Chr21 for an MM10 dataset
Answer: Handling NA values in limma's voom design matrix
Answer: Handling NA values in limma's voom design matrix
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