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biseq
•
reset
0
votes
1
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1.0k
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Variogram-sill larger than 1, and negative p.li values in trimClusters-output
BiSeq
3.8 years ago • updated 3.7 years ago
thomas.koefoed
• 0
0
votes
0
replies
1.1k
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq
Methylation
DMP
DMR
RRBS
5.3 years ago
i.s.castanho
• 0
0
votes
1
reply
1.4k
views
How to convert bedgraph.sorted or wig files to coverage files
bedgraph
.cov
wig
biseq
coverage
5.3 years ago
akhaira
• 0
0
votes
1
reply
1.1k
views
testClusters and trimClusters error in BiSeq
BiSeq
testClusters
error
dmr
5.4 years ago • updated 5.3 years ago
akhaira
• 0
2
votes
8
replies
1.6k
views
Reason for NA in table after beta regression?
biseq
beta regression
5.4 years ago
akhaira
• 0
0
votes
0
replies
732
views
What values to include for predictedMethNull in BiSeq
Biseq
5.4 years ago
akhaira
• 0
2
votes
10
replies
2.1k
views
How do you use the readBismark command in BiSeq properly?
BiSeq
DMR
updated 5.4 years ago by
James W. MacDonald
68k • written 5.4 years ago by
akhaira
• 0
1
vote
0
replies
920
views
Understanding ColData in BiSeq
BiSeq
Coldata
5.4 years ago
akhaira
• 0
0
votes
1
reply
1.0k
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq
R
methylation
5.5 years ago
AishaD
• 0
0
votes
1
reply
973
views
BiSeq - betaResults output only contains chr1 and chr2
biseq
betaRegression
RRBS
Methylation
5.6 years ago
i.s.castanho
• 0
0
votes
0
replies
1.1k
views
Beta Regression model with wald test - BiSeq - which test is used?
BiSeq
Wald test
Beta regression
6.8 years ago
mira
• 0
0
votes
1
reply
1.3k
views
Biseq installation error
biseq
package installation
r
updated 6.8 years ago by
Martin Morgan
25k • written 6.8 years ago by
lwh863
• 0
0
votes
0
replies
1.3k
views
BiSeq: Read in Relative Methylation data from CCLE
biseq
ccle
7.3 years ago
spr
▴ 10
0
votes
1
reply
1.5k
views
Problem in working with BiSeq - BSraw
dna methylation
biseq
updated 7.9 years ago by
Gordon Smyth
53k • written 7.9 years ago by
ahmad.moousavi
• 0
0
votes
1
reply
1.5k
views
BiSeq - modelling options betaRegression
biseq
RRBS
betaregression
8.6 years ago
l.eijssen
• 0
0
votes
3
replies
1.7k
views
BiSeq. Model beta regression on resampled data.
biseq
methylation
dmr analysis
updated 8.9 years ago by
Katja Hebestreit
▴ 130 • written 8.9 years ago by
jjalmagro
• 0
0
votes
6
replies
2.4k
views
BiSeq trimClusters error
biseq
error
trimClusters
updated 9.8 years ago by
Katja Hebestreit
▴ 130 • written 9.8 years ago by
kms68
• 0
1
vote
0
replies
2.0k
views
Multiple linear regression model for DMR detection?
methylation
linear model
dmr
bsseq
biseq
9.9 years ago
enricoferrero
▴ 680
4
votes
4
replies
2.3k
views
Unable to read data using readBismark in BiSeq
BiSeq
readBismark
updated 10.0 years ago by
James W. MacDonald
68k • written 10.0 years ago by
Neel Aluru
▴ 460
1
vote
2
replies
3.1k
views
BS-seq differential methylation analysis using continuous variable
dmr
methylation
deseq2
bsseq
biseq
updated 10.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 10.1 years ago by
enricoferrero
▴ 680
2
votes
15
replies
4.3k
views
BiSeq trimClusters FDR.loc confusion
biseq
fdr
data
results
10.6 years ago • updated 10.5 years ago
mnaymik
▴ 10
0
votes
5
replies
2.6k
views
SAAP-BS data analysis (RRBS) - BiSeq use and Coverage Histogram
biseq
RRBS
SAAP-BS
coverage
10.5 years ago
maria.maqueda
• 0
0
votes
3
replies
2.1k
views
BiSeq - readBismark error
BiSeq
BiSeq
updated 11.8 years ago by
David Iles
▴ 130 • written 11.8 years ago by
Hans-Ulrich Klein
▴ 330
23 results • Page
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Answer: After running samtools, the featureCounts command crashed.
by
Kevin Blighe
★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot
by
Kevin Blighe
★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type
by
Kevin Blighe
★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
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Answer: DESeq2 design for haplotype MPRA
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