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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
Katja Hebestreit
▴ 130 • written 8.3 years ago by
kms68
• 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
David Iles
▴ 130 • written 10.3 years ago by
Hans-Ulrich Klein
▴ 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
Kasper Daniel Hansen
★ 6.5k • written 8.6 years ago by
enricoferrero
▴ 660
4
votes
4
replies
1.9k
views
Unable to read data using readBismark in BiSeq
BiSeq
readBismark
updated 8.5 years ago by
James W. MacDonald
65k • written 8.5 years ago by
Neel Aluru
▴ 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
Katja Hebestreit
▴ 130 • written 7.4 years ago by
jjalmagro
• 0
0
votes
1
reply
1.1k
views
Problem in working with BiSeq - BSraw
dna methylation
biseq
updated 6.4 years ago by
Gordon Smyth
50k • written 6.4 years ago by
ahmad.moousavi
• 0
0
votes
1
reply
951
views
Biseq installation error
biseq
package installation
r
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
lwh863
• 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
James W. MacDonald
65k • written 3.9 years ago by
akhaira
• 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
587
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
Recent ...
Replies
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
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?
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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