Showing : biseq • reset
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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
3.7 years ago thomas.koefoed • 0
0
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0
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1.1k
views
Does it make sense to use Biseq for DMPs/DMCs in addition to DMRs?
Biseq Methylation DMP DMR RRBS
5.2 years ago i.s.castanho • 0
0
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1
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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
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1
reply
1.1k
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
5.3 years ago akhaira • 0
2
votes
8
replies
1.6k
views
Reason for NA in table after beta regression?
biseq beta regression
5.3 years ago akhaira • 0
0
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0
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719
views
What values to include for predictedMethNull in BiSeq
Biseq
5.3 years ago akhaira • 0
2
votes
10
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2.0k
views
How do you use the readBismark command in BiSeq properly?
BiSeq DMR
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
1
vote
0
replies
904
views
Understanding ColData in BiSeq
BiSeq Coldata
5.4 years ago akhaira • 0
0
votes
1
reply
986
views
Are the ordering of outputs of methylation matrix and coordinates from predictedMeth() the same?
biseq R methylation
5.4 years ago AishaD • 0
0
votes
1
reply
950
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
6.7 years ago mira • 0
0
votes
1
reply
1.3k
views
Biseq installation error
biseq package installation r
updated 6.8 years ago by 25k • written 6.8 years ago by • 0
0
votes
0
replies
1.2k
views
BiSeq: Read in Relative Methylation data from CCLE
biseq ccle
7.2 years ago spr ▴ 10
0
votes
1
reply
1.4k
views
Problem in working with BiSeq - BSraw
dna methylation biseq
updated 7.8 years ago by 53k • written 7.8 years ago by • 0
0
votes
1
reply
1.4k
views
BiSeq - modelling options betaRegression
biseq RRBS betaregression
8.5 years ago l.eijssen • 0
0
votes
3
replies
1.7k
views
BiSeq. Model beta regression on resampled data.
biseq methylation dmr analysis
updated 8.8 years ago by ▴ 130 • written 8.8 years ago by • 0
0
votes
6
replies
2.4k
views
BiSeq trimClusters error
biseq error trimClusters
updated 9.7 years ago by ▴ 130 • written 9.8 years ago by • 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 68k • written 10.0 years ago by ▴ 460
1
vote
2
replies
3.1k
views
BS-seq differential methylation analysis using continuous variable
dmr methylation deseq2 bsseq biseq
updated 10.0 years ago by ★ 6.5k • written 10.0 years ago by ▴ 680
2
votes
15
replies
4.2k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
10.5 years ago • updated 10.4 years ago mnaymik ▴ 10
0
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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 11.7 years ago by ▴ 130 • written 11.7 years ago by ▴ 330
23 results • Page 1 of 1
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Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by dzv20413 • 0
Wow, GBCC 2025 sounds amazing, can not wait to see the logo contest results! Also, I just played [Level Devil][1] and it is super addictive…
Comment: Memory error while running alignments by Erik Wright ▴ 150
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…
Comment: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by Gabriel • 0
Thank you very much for the reply. However, none of these three options seems to fit: 1) The genes for which NA appears do not have all 0 …
Comment: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by ubjw24 • 0
Thank you for your replies. I got the problem solved by installing mutSignature with this line: ``` devtools::install_github("dami82/mutS…
Comment: DESeq2 design for haplotype MPRA by Rita • 0
Thank you very much, I appreciate it!
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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