Showing : biseq • reset
2
votes
15
replies
3.1k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.1 years ago • updated 9.0 years ago mnaymik ▴ 10
0
votes
6
replies
1.9k
views
BiSeq trimClusters error
biseq error trimClusters
updated 8.3 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
9.1 years ago • updated 9.0 years ago maria.maqueda • 0
0
votes
3
replies
1.7k
views
BiSeq - readBismark error
BiSeq BiSeq
updated 10.3 years ago by ▴ 130 • written 10.3 years ago by ▴ 330
1
vote
2
replies
2.5k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 8.6 years ago by ★ 6.5k • written 8.6 years ago by ▴ 660
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
1.3k
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 7.4 years ago by ▴ 130 • written 7.4 years ago by • 0
0
votes
1
reply
1.1k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 6.4 years ago by 50k • written 6.4 years ago by • 0
0
votes
1
reply
951
views
Biseq installation error
biseq package installation r
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
2
votes
10
replies
1.2k
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
0
votes
0
replies
916
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
5.8 years ago spr ▴ 10
0
votes
0
replies
755
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
0
votes
0
replies
742
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq Wald test Beta regression
5.3 years ago mira • 0
0
votes
1
reply
613
views
BiSeq - betaResults output only contains chr1 and chr2
biseq betaRegression RRBS Methylation
4.2 years ago i.s.castanho • 0
0
votes
1
reply
647
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
4.0 years ago AishaD • 0
1
vote
0
replies
584
views
Understanding ColData in BiSeq
BiSeq Coldata
4.0 years ago akhaira • 0
0
votes
1
reply
642
views
Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
2.3 years ago thomas.koefoed • 0
0
votes
0
replies
475
views
What values to include for predictedMethNull in BiSeq
Biseq
3.9 years ago akhaira • 0
2
votes
8
replies
943
views
Reason for NA in table after beta regression?
biseq beta regression
3.9 years ago akhaira • 0
1
vote
0
replies
1.7k
views
Multiple linear regression model for DMR detection?
methylation linear model dmr bsseq biseq
8.4 years ago enricoferrero ▴ 660
0
votes
1
reply
737
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
3.9 years ago akhaira • 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
929
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph .cov wig biseq coverage
3.8 years ago akhaira • 0
23 results • Page 1 of 1
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Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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