Showing : Biseq • reset
0
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1
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813
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Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
2.9 years ago thomas.koefoed • 0
0
votes
0
replies
921
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
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1.2k
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
4.5 years ago akhaira • 0
0
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1
reply
887
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
4.5 years ago akhaira • 0
2
votes
8
replies
1.2k
views
Reason for NA in table after beta regression?
biseq beta regression
4.5 years ago akhaira • 0
0
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0
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594
views
What values to include for predictedMethNull in BiSeq
Biseq
4.5 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
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0
replies
736
views
Understanding ColData in BiSeq
BiSeq Coldata
4.6 years ago akhaira • 0
0
votes
1
reply
812
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
766
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
4.8 years ago i.s.castanho • 0
0
votes
0
replies
896
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
5.9 years ago mira • 0
0
votes
1
reply
1.2k
views
Biseq installation error
biseq package installation r
updated 6.0 years ago by 25k • written 6.0 years ago by • 0
0
votes
0
replies
1.1k
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
6.4 years ago spr ▴ 10
0
votes
1
reply
1.3k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 7.0 years ago by 52k • written 7.0 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 8.0 years ago by ▴ 130 • written 8.0 years ago by • 0
0
votes
6
replies
2.1k
views
BiSeq trimClusters error
biseq error trimClusters
updated 8.9 years ago by ▴ 130 • written 9.0 years ago by • 0
1
vote
0
replies
1.9k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
9.1 years ago enricoferrero ▴ 660
4
votes
4
replies
2.1k
views
Unable to read data using readBismark in BiSeq
BiSeq readBismark
updated 9.2 years ago by 67k • written 9.2 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 9.2 years ago by ★ 6.5k • written 9.2 years ago by ▴ 660
2
votes
15
replies
3.5k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.7 years ago • updated 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
9.7 years ago • updated 9.6 years ago maria.maqueda • 0
0
votes
3
replies
1.9k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 10.9 years ago by ▴ 130 • written 10.9 years ago by ▴ 330
23 results • Page 1 of 1
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Replies
Comment: ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix by O'Brien • 0
Consult the ChAMP.DMR documentation for more information on supported array types and expected data formats: https://bioconductor.org/packa…
Answer: combining raw counts and estimated counts by O'Brien • 0
It is possible to combine raw counts from TCGA and estimated counts from GEO datasets (Kalisto pseudoalignment) while mitigating batch effe…
Comment: Packages don't update, but no error or warning is thrown by neighsanlo • 0
This is useful information.
Comment: Perform gene set enrichment analysis using fgsea on two conditions that don't ha by freemanmclaughlin9969289 • 0
Tools such as Pathway Analysis with Deweighting of Overlapping Genes ([block blast][1]) or Gene Set Enrichment Analysis for Single Cell RNA…
Comment: How to get around the warning message: mzR has been built against a different Rc by Nan • 0
Hello, I was wondering if you were able to resolve this issue? I've recently encountered a similar problem and would like to ask for your a…
Votes
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
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