Showing : Mast • reset
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78
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Confidence interval contains 0 but p<0.05
MAST
13 days ago Adelyn • 0
3
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3
replies
888
views
Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 7 weeks ago by • 0
0
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1
reply
279
views
Which input data is acceptable for MAST?
SCTransform MAST
updated 10 weeks ago by ▴ 270 • written 10 weeks ago by • 0
0
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0
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332
views
Z-score Interpretation across components
MAST
3 months ago Greg • 0
0
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0
replies
281
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MAST package: Most appropriate way to perform lrTest for effect of factor with multiple levels in pairwise manner?
MAST
5 months ago Kelly • 0
0
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0
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415
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Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
5 months ago nhaus ▴ 70
1
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2
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638
views
Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 9 months ago by ★ 4.6k • written 9 months ago by • 0
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0
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624
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Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 9 months ago by 67k • written 9 months ago by • 0
0
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0
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346
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Comparing the effects of a condition over time in two seperate tissues
MAST
10 months ago Dillon • 0
0
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1
reply
627
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Mismatch between MAST DE results and expression dot plot
MAST mastR
11 months ago Simon • 0
0
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0
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710
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
20 months ago Tadeoye ▴ 20
1
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7
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1.8k
views
Likelihood ratio test (lrTest) in MAST comparing full to reduced model; and another question on controlling for CDR
MAST
21 months ago Ken C • 0
0
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0
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585
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MAST for single cell ATAC data
MAST
21 months ago zuljiamel1991 ▴ 10
2
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2
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2.1k
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Input for MAST
MAST
22 months ago • updated 21 months ago zuljiamel1991 ▴ 10
0
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0
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1.3k
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How to interpret MAST coefficients
DifferentialExpression MAST
2.2 years ago Ismail • 0
0
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0
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646
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How does MAST caculate log fc
MAST
2.3 years ago Chenghao • 0
0
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0
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868
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Differential expression with single cell data: any good two component (hurdle) models recently?
SingleCellWorkflow DifferentialExpression SingleCell SingleCellMultiModal MAST
2.5 years ago Nik Tuzov ▴ 90
0
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0
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967
views
Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
2.6 years ago zroger499 • 0
0
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1
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1.2k
views
Low logFCs using MAST for scRNA-seq
MAST
updated 3 months ago by ▴ 70 • written 2.7 years ago by • 0
0
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0
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981
views
Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
2.9 years ago zroger499 • 0
1
vote
0
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804
views
When I run `zlm` with several clusters, how to compare 1 cluster versus all the others?
MAST
3.4 years ago Dan • 0
0
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1
reply
1.2k
views
Differentially expressed genes across three different conditions
MAST SingleCell diffGeneAnalysis
updated 3.5 years ago by 67k • written 3.5 years ago by • 0
0
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1
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1.1k
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MAST zlm shows warning: Coefficients ... are never estimible and will be dropped.
MAST
updated 3.5 years ago by • 0 • written 3.8 years ago by • 0
0
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1
reply
1.4k
views
How to do pairwise multiple comparisons in MAST
MAST
updated 5 months ago by • 0 • written 3.8 years ago by • 0
0
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2
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1.4k
views
MAST compare two conditions with several donors
MAST
updated 3.9 years ago by • 0 • written 4.1 years ago by • 0
0
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3
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1.7k
views
MAST invalid Hypothesis, class objectORconnection error
R MAST scRNASeq
4.3 years ago TriS ▴ 200
1
vote
3
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1.6k
views
comparing 2 models with confounders with MAST (scRNA-seq DEA)
scRNA-seq MAST confounders
updated 4.9 years ago by ▴ 270 • written 4.9 years ago by ▴ 10
0
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1
reply
1.6k
views
About getting DE genes using MAST
MAST
updated 5.0 years ago by ▴ 270 • written 5.0 years ago by • 0
0
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0
replies
1.1k
views
DEG among experimental and control group in MAST
MAST DEG batch effects
5.2 years ago chendianyu • 0
0
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1
reply
2.1k
views
Minimum number of cells required for the MAST
MAST scRNAseq differential expression
5.3 years ago Andrew_McDavid ▴ 270
2
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3
replies
1.5k
views
Logistic regression in MAST - question
mast
updated 5.8 years ago by ▴ 270 • written 5.8 years ago by ▴ 90
2
votes
7
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2.0k
views
Estimation of non-trivial contrasts in MAST
mast
updated 5.8 years ago by ▴ 270 • written 5.8 years ago by ▴ 90
0
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1
reply
1.3k
views
How can I compute AIC for MAST hurdle model fitted in the whole dataset?
MAST AIC calcuation Parameters single cell hurdle model
updated 9 months ago by ▴ 30 • written 5.9 years ago by • 0
0
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2
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1.5k
views
Warning in bayes fit in MAST GSEA
MAST GSEA bayesglm.fit
6.3 years ago santos22903 • 0
0
votes
6
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1.8k
views
Error in zlm function model matrix
MAST
6.6 years ago jka8119 ▴ 10
2
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4
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2.2k
views
Interpretation of cngeneson when doing differential expression analysis in MAST
mast differential gene expression
updated 6.7 years ago by ▴ 270 • written 6.7 years ago by ▴ 40
2
votes
1
reply
2.9k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 6.7 years ago by ▴ 270 • written 6.7 years ago by ▴ 20
2
votes
1
reply
1.3k
views
How to load data csv in MAST
mast
6.7 years ago francesco.brundu@gmail.com ▴ 40
0
votes
4
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1.5k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
6.7 years ago dfm2129 • 0
0
votes
8
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2.2k
views
MAST - not getting Hurdle p values
MAST
updated 6.8 years ago by ▴ 270 • written 6.8 years ago by ▴ 10
2
votes
3
replies
2.4k
views
Using MAST with DropSeq data
MAST mast dropseq
updated 6.9 years ago by ▴ 270 • written 6.9 years ago by ▴ 10
4
votes
3
replies
2.3k
views
single-cells RNA-seq analysis by MAST with unbalanced group size
mast single-cell rna-seq differential analysis
updated 7.0 years ago by ▴ 270 • written 7.0 years ago by ▴ 100
0
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2
replies
1.6k
views
What is the most useful distance measure to use for cell clustering based on MAST deviance residuals?
MAST
7.2 years ago alexanderaivazidis • 0
3
votes
3
replies
2.9k
views
How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 7.3 years ago by ▴ 270 • written 7.3 years ago by ▴ 40
4
votes
1
reply
2.1k
views
NAs in continuous coefficient and fold change in `zlm`
scrnaseq MAST differential gene expression
7.3 years ago Andrew_McDavid ▴ 270
2
votes
1
reply
4.7k
views
Intepretation of Z scores for gene set enrichment analysis in MAST
MAST scRNA GSEA
updated 7.4 years ago by ▴ 270 • written 7.4 years ago by • 0
0
votes
3
replies
1.7k
views
Modeling Dose-response data in MAST
MAST sc-rnaseq scrnaseq
updated 7.4 years ago by ▴ 270 • written 7.4 years ago by • 0
0
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1
reply
1.5k
views
Removal of batch effects before non-linear clustering for scRNAseq
scrnaseq MAST
7.6 years ago Andrew_McDavid ▴ 270
3
votes
2
replies
2.6k
views
MAST reported warning "Coefficients ... are never estimible and will be dropped."
mast sc-rnaseq
7.7 years ago shao ▴ 100
49 results • Page 1 of 1
Recent ...
Replies
Answer: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k
Just fit a model `~condition + experiment` where `condition` has three levels A, B and C. Ideally, use limma and include duplicate correlat…
Comment: Error in get_anno_data(ontology) : ontology not supported yet... by GODseeker • 0
thank u so much ,god bless u,my dear friend.
Comment: Feature Counts - potential bug with outfile.jcounts by chris2.a.white • 0
Hi @gordonsmyth and @weishi, Firstly, thank you for offering your time to develop the junction quantification module further. This is gre…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Hi Tim, Thanks for your reply! Yes, my data is 450K, and it is TCGA methylation data downloaded by TCGAbiolinks. The problem is that I can …
Answer: Error in get_anno_data(ontology) : ontology not supported yet... by Guido Hooiveld ★ 4.1k
Did you check the help page for the function `enrichDO`? Type `?enrichDO`. I am asking, because there it is stated that the argument `ont`…
Votes
A: Advice on correcting for batch effect using DESeq2
Comment: Feature Counts - potential bug with outfile.jcounts
Answer: Feature Counts - potential bug with outfile.jcounts
Comment: Can we get beta values with DMRcate package
Answer: Can we get beta values with DMRcate package
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