Showing : lrt • reset
0
votes
7
replies
1.1k
views
LRT test followed by filtering based on LFC
deseq2 LFC LRT
written 4.6 years ago by • 0
0
votes
1
reply
291
views
DESeq2 with 2 continuous factors, LRT, coeficients and slope
DESeq2 LRT continuous coeficients
updated 7 months ago by 40k • written 7 months ago by ▴ 10
0
votes
1
reply
342
views
Log2FC in LRT vs Wald in multifactorial design
DESeq2 LRT multifactorial up/down-reg log2FC
updated 9 months ago by 63k • written 9 months ago by ▴ 10
0
votes
2
replies
456
views
Is it correct to plot Log2FC vs adj p-value from Likelihood ratio test?
DESeq2 adjp Volcano LRT
written 10 months ago by ▴ 10
0
votes
1
reply
495
views
Interpretation of LRT results
DESeq2 LRT Heatmap
updated 10 months ago by 63k • written 10 months ago by ▴ 10
0
votes
1
reply
358
views
DESeq2 LRT not returning genes
LRT linearmodels DESeq2
updated 14 months ago by 40k • written 14 months ago by ▴ 30
0
votes
1
reply
524
views
LRT test in DESeq2 decide on the level of comparisons
DESeq2 LRT Model
updated 18 months ago by 40k • written 18 months ago by • 0
1
vote
3
replies
926
views
Correct use of Likelihood Ratio Test and LFC Shrinkage
RNASeq LRT DESeq2 lfcShrink
updated 7 months ago by • 0 • written 20 months ago by • 0
0
votes
1
reply
559
views
DESeq2 differences in Wald and LRT in multi-factorial design
microbiome LRT DESeq2
updated 20 months ago by 40k • written 20 months ago by • 0
0
votes
3
replies
667
views
Analysis of interactions in RNAseq data: LRT vs 2 way ANOVA
DESeq2 LRT two-way-ANOVA interactions
updated 2.1 years ago by 40k • written 2.1 years ago by • 0
0
votes
1
reply
1.3k
views
DESeq2 time course and dosage response
LRT Design DESeq2 doseResponse TimeSeriesExperiment
updated 2.1 years ago by 40k • written 2.1 years ago by • 0
4
votes
18
replies
4.2k
views
DESeq2 - multifactorial design
LRT DESeq2 interaction
updated 2.5 years ago by 3.8k • written 2.5 years ago by ▴ 10
1
vote
7
replies
713
views
How to get multi-factor Deseq LRT test log P values for a particular condition
Deseq2 LRT Factors RNAseq
3.1 years ago aishu.jp ▴ 30
1
vote
4
replies
1.5k
views
Issues with DESeq2 LRT for time-course experiment
rna-seq R DESeq2 LRT
updated 3.1 years ago by 3.8k • written 3.1 years ago by ▴ 10
0
votes
3
replies
456
views
Error using DESeq2's nbinomLRT
deseq2 LRT
updated 3.1 years ago by 40k • written 3.1 years ago by ▴ 20
0
votes
1
reply
502
views
How to describe LRT test condition for time series RNA-seq data of 2 varieties
deseq2 LRT RNAseq condition
updated 3.1 years ago by 40k • written 3.1 years ago by ▴ 30
1
vote
2
replies
1.0k
views
"Error in nbinomLRT(... less than one degree of freedom"... Isolating main and interaction effects with the LRT?
deseq2 main effects interaction effects R lrt
updated 3.2 years ago by 40k • written 3.2 years ago by • 0
0
votes
8
replies
2.0k
views
DESeq LRT reduced model
deseq2 LRT
updated 3.5 years ago by 40k • written 3.5 years ago by • 0
1
vote
1
reply
534
views
multifactor desing with interaction LRT or Wald test?
deseq2 LRT wald
updated 3.5 years ago by 3.8k • written 3.5 years ago by ▴ 10
0
votes
2
replies
692
views
Design of time-course experiment in DESeq2
deseq2 design design formula time course lrt
updated 3.7 years ago by 40k • written 3.7 years ago by • 0
2
votes
2
replies
2.9k
views
understanding edgeR glmLRT
edger lrt
updated 3.8 years ago by 48k • written 3.8 years ago by • 0
1
vote
1
reply
1.6k
views
DESeq2 test LRT or WALD
deseq2 LRT WALD
updated 4.1 years ago by 40k • written 4.1 years ago by • 0
1
vote
2
replies
1.8k
views
DeSEQ2- What is the difference between Gene Clustering and using LRT for Time Series experiment WITHOUT treatments
deseq2 Time Series Gene Clustering LRT ATACseq
updated 4.6 years ago by 40k • written 4.6 years ago by • 0
3
votes
3
replies
720
views
clarification of time-series analysis
deseq2 baseline LRT
updated 4.6 years ago by 40k • written 4.6 years ago by ★ 1.5k
0
votes
4
replies
1.0k
views
DESeq2 Ribosome Profiling Time-series: Significantly Different Results for Wald and LRT test
deseq2 ribosome profiling wald lrt
updated 4.7 years ago by 40k • written 4.7 years ago by ▴ 20
1
vote
5
replies
1.2k
views
Timecourse gene expression analysis with DESeq2
timecourse deseq2 multiple factor design LRT
updated 4.8 years ago by 40k • written 4.8 years ago by • 0
1
vote
4
replies
712
views
model for LRT
deseq2 LRT
updated 4.8 years ago by 40k • written 4.8 years ago by • 0
7
votes
7
replies
8.2k
views
DESeq2 likelihood ratio test (LRT) design - 2 genotypes, 4 time points
deseq2 LRT rnaseq design reduced model
updated 4.8 years ago by • 0 • written 6.4 years ago by ▴ 50
0
votes
6
replies
960
views
Custom model matrix for multi factordesign
deseq2 LRT geometric mean estimatesizefactors model.matrix
updated 5.0 years ago by 40k • written 5.0 years ago by • 0
2
votes
4
replies
937
views
RNA-seq time course experiment - LRT design hep
deseq2 lrt timecourse
5.0 years ago Maithê Barros ▴ 10
4
votes
7
replies
6.7k
views
DESeq2: likelihood ratio test interpretation, multifactor
likelihood ratio test deseq2 LRT
updated 11 months ago by 40k • written 5.1 years ago by ▴ 10
1
vote
6
replies
1.0k
views
differential expression analysis with big dataset and >500 surrogate variables
SVA deseq2 differential expression LRT
5.4 years ago aec ▴ 90
0
votes
5
replies
1.6k
views
DESeq LRT test and construction of Co-expression network
LRT co-expression network deseq2 time course experiment network analysis
updated 3 months ago by • 0 • written 5.5 years ago by ▴ 30
1
vote
2
replies
737
views
Interpretation of results names after LRT
DESeq2 LRT multiple time points
updated 5.5 years ago by 40k • written 5.6 years ago by ▴ 40
0
votes
3
replies
962
views
Error in DESeq "object" not found
deseq2 LRT reduced model
updated 5.6 years ago by 63k • written 5.6 years ago by ▴ 40
3
votes
8
replies
1.1k
views
Filtering for genes >100 counts after LRT still showing significant genes with genes with 0 counts!
LRT CPM lowcountgenes deseq2
5.6 years ago A ▴ 40
0
votes
4
replies
954
views
Design for DESeq2
LRT deseq2 multiple factor design
6.0 years ago sally_b86 • 0
1
vote
1
reply
980
views
DESeq2: Is it necessary to include all terms and interactions in LRT tests?
deseq2 lrt
updated 6.0 years ago by ▴ 670 • written 6.0 years ago by • 0
5
votes
2
replies
3.7k
views
deseq2 LRT vs Wald test results for DE expression among 4 conditions
rnaseq deseq2 lrt wald differential gene expression
updated 18 months ago by • 0 • written 6.0 years ago by • 0
0
votes
6
replies
2.4k
views
DESeq extract result of lrt for a subset of the samples
deseq2 rnaseq lrt
updated 6.4 years ago by 40k • written 6.4 years ago by • 0
1
vote
1
reply
1.3k
views
DESeq2 high variance in differential expression results
deseq2 variance lrt differential gene expression
updated 6.5 years ago by 7.8k • written 6.5 years ago by ▴ 20
1
vote
11
replies
3.7k
views
Time-series Analysis using DESeq2 and LRT test
deseq2 LRT timecourse
updated 18 months ago by 40k • written 6.6 years ago by ★ 1.5k
2
votes
1
reply
1.1k
views
LRT test with or without betaPrior
deseq2 LRT betaprior
updated 7.0 years ago by 40k • written 7.0 years ago by ▴ 20
0
votes
3
replies
2.4k
views
Wald vs LRT: different number of significant genes when testing the same coefficient
deseq2 wald lrt genes significance
updated 7.3 years ago by 40k • written 7.3 years ago by ▴ 20
2
votes
5
replies
5.1k
views
DESeq2 multifactor experiment design
deseq2 LRT multifactor contrast interactions
7.7 years ago • updated 7.6 years ago rclaire ▴ 20
0
votes
8
replies
2.5k
views
Problems with LRT code using DESeq2
deseq2 LRT differential gene expression
7.8 years ago • updated 7.7 years ago newsomew13 • 0
4
votes
2
replies
8.7k
views
DESeq2 LRT output help
deseq2 LRT anova
8.4 years ago • updated 8.3 years ago rclaire ▴ 20
8
votes
2
replies
5.6k
views
interpreting LRT results DESeq2
deseq2 LRT RNA-Seq
updated 8.5 years ago by 40k • written 8.5 years ago by ▴ 90
48 results • Page 1 of 1
Recent ...
Replies
Comment: Speeding up of DelayedArray::write_block() by Koki ▴ 10
I don't know the details but do you mean using `HDF5RealizationSink` or `TENxRealizationSink` will make it possible to writing sparse multi…
Comment: DelayedArray::read_sparse_block by Koki ▴ 10
Ok, I understood. How about "writing" to HDF5? Are you going to implement `write_block_as_sparse` in `SparseArray` package?
Comment: DelayedArray::read_sparse_block by Hervé Pagès 16k
> So do you means the specification change from DelayedArray's read_sparse_block to SparseArray's read_block_as_sparse will accelerate the …
Comment: DelayedArray::read_sparse_block by Koki ▴ 10
Thanks for your reply. So do you means the specification change from `DelayedArray`'s `read_sparse_block` to `SparseArray`'s `read_block_a…
Comment: DMRcate design by James W. MacDonald 63k
That's what identical context means.
Votes
Comment: Speeding up of DelayedArray::write_block()
Answer: DelayedArray::read_sparse_block
Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
Comment: Timely differentially expressed genes
Comment: NPARC package y-variable
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