Showing : Mast • reset
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254
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Confidence interval contains 0 but p<0.05
MAST
10 months ago Adelyn • 0
3
votes
3
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1.5k
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Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 11 months ago by • 0
0
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1
reply
858
views
Which input data is acceptable for MAST?
SCTransform MAST
updated 12 months ago by ▴ 280 • written 12 months ago by • 0
0
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0
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459
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Z-score Interpretation across components
MAST
13 months ago GJ • 0
0
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0
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495
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MAST package: Most appropriate way to perform lrTest for effect of factor with multiple levels in pairwise manner?
MAST
14 months ago Kelly • 0
0
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0
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752
views
Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
15 months ago nhaus ▴ 70
1
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2
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1.2k
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Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 18 months ago by ★ 5.0k • written 18 months ago by • 0
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0
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995
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Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 19 months ago by 68k • written 19 months ago by • 0
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0
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498
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Comparing the effects of a condition over time in two seperate tissues
MAST
19 months ago Dillon • 0
0
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1
reply
952
views
Mismatch between MAST DE results and expression dot plot
MAST mastR
21 months ago Simon • 0
0
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0
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944
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How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
2.5 years ago Tadeoye ▴ 20
1
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7
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2.6k
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Likelihood ratio test (lrTest) in MAST comparing full to reduced model; and another question on controlling for CDR
MAST
2.6 years ago • updated 2.5 years ago Ken C • 0
0
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0
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792
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MAST for single cell ATAC data
MAST
2.6 years ago zuljiamel1991 ▴ 10
2
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2
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2.8k
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Input for MAST
MAST
2.6 years ago zuljiamel1991 ▴ 10
0
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1
reply
2.3k
views
How to interpret MAST coefficients
DifferentialExpression MAST
updated 4 months ago by ▴ 10 • written 3.0 years ago by • 0
0
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1
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1.3k
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How does MAST caculate log fc
MAST
3.1 years ago • updated 4 months ago Chenghao ▴ 10
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0
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1.1k
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Differential expression with single cell data: any good two component (hurdle) models recently?
SingleCellWorkflow DifferentialExpression SingleCell SingleCellMultiModal MAST
3.3 years ago Nik Tuzov ▴ 90
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0
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1.2k
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Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
3.4 years ago zroger499 • 0
0
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1
reply
1.5k
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Low logFCs using MAST for scRNA-seq
MAST
updated 13 months ago by ▴ 70 • written 3.5 years ago by • 0
0
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0
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1.2k
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Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
3.7 years ago zroger499 • 0
1
vote
0
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975
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When I run `zlm` with several clusters, how to compare 1 cluster versus all the others?
MAST
4.2 years ago Dan • 0
0
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1
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1.4k
views
Differentially expressed genes across three different conditions
MAST SingleCell diffGeneAnalysis
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
0
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1
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1.3k
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MAST zlm shows warning: Coefficients ... are never estimible and will be dropped.
MAST
updated 4.4 years ago by • 0 • written 4.6 years ago by • 0
0
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1
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1.8k
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How to do pairwise multiple comparisons in MAST
MAST
updated 14 months ago by • 0 • written 4.6 years ago by • 0
0
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2
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1.8k
views
MAST compare two conditions with several donors
MAST
updated 4.7 years ago by • 0 • written 4.9 years ago by • 0
0
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3
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2.0k
views
MAST invalid Hypothesis, class objectORconnection error
R MAST scRNASeq
5.2 years ago • updated 5.1 years ago TriS ▴ 200
1
vote
3
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2.0k
views
comparing 2 models with confounders with MAST (scRNA-seq DEA)
scRNA-seq MAST confounders
updated 5.8 years ago by ▴ 280 • written 5.8 years ago by ▴ 10
0
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1
reply
2.0k
views
About getting DE genes using MAST
MAST
updated 5.8 years ago by ▴ 280 • written 5.8 years ago by • 0
0
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0
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1.2k
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DEG among experimental and control group in MAST
MAST DEG batch effects
6.0 years ago chendianyu • 0
0
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1
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2.6k
views
Minimum number of cells required for the MAST
MAST scRNAseq differential expression
6.1 years ago Andrew_McDavid ▴ 280
2
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3
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1.7k
views
Logistic regression in MAST - question
mast
updated 6.6 years ago by ▴ 280 • written 6.6 years ago by ▴ 90
2
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7
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2.4k
views
Estimation of non-trivial contrasts in MAST
mast
updated 6.6 years ago by ▴ 280 • written 6.6 years ago by ▴ 90
0
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1
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1.6k
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How can I compute AIC for MAST hurdle model fitted in the whole dataset?
MAST AIC calcuation Parameters single cell hurdle model
updated 18 months ago by ▴ 30 • written 6.7 years ago by • 0
0
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2
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1.7k
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Warning in bayes fit in MAST GSEA
MAST GSEA bayesglm.fit
7.1 years ago santos22903 • 0
0
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6
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2.2k
views
Error in zlm function model matrix
MAST
7.4 years ago jka8119 ▴ 10
2
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4
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2.6k
views
Interpretation of cngeneson when doing differential expression analysis in MAST
mast differential gene expression
updated 7.5 years ago by ▴ 280 • written 7.5 years ago by ▴ 40
2
votes
1
reply
3.5k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 7.5 years ago by ▴ 280 • written 7.5 years ago by ▴ 20
2
votes
1
reply
1.4k
views
How to load data csv in MAST
mast
7.5 years ago francesco.brundu@gmail.com ▴ 40
0
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4
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1.8k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
7.5 years ago dfm2129 • 0
0
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8
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2.6k
views
MAST - not getting Hurdle p values
MAST
updated 7.6 years ago by ▴ 280 • written 7.6 years ago by ▴ 10
2
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3
replies
2.8k
views
Using MAST with DropSeq data
MAST mast dropseq
updated 7.7 years ago by ▴ 280 • written 7.7 years ago by ▴ 10
5
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3
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2.9k
views
single-cells RNA-seq analysis by MAST with unbalanced group size
mast single-cell rna-seq differential analysis
updated 6 months ago by ▴ 10 • written 7.8 years ago by ▴ 100
0
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2
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1.9k
views
What is the most useful distance measure to use for cell clustering based on MAST deviance residuals?
MAST
8.0 years ago alexanderaivazidis • 0
3
votes
3
replies
3.4k
views
How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 8.1 years ago by ▴ 280 • written 8.1 years ago by ▴ 40
4
votes
1
reply
2.4k
views
NAs in continuous coefficient and fold change in `zlm`
scrnaseq MAST differential gene expression
8.2 years ago Andrew_McDavid ▴ 280
2
votes
1
reply
5.3k
views
Intepretation of Z scores for gene set enrichment analysis in MAST
MAST scRNA GSEA
updated 8.2 years ago by ▴ 280 • written 8.2 years ago by • 0
0
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3
replies
2.0k
views
Modeling Dose-response data in MAST
MAST sc-rnaseq scrnaseq
updated 8.2 years ago by ▴ 280 • written 8.2 years ago by • 0
0
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1
reply
1.7k
views
Removal of batch effects before non-linear clustering for scRNAseq
scrnaseq MAST
8.5 years ago Andrew_McDavid ▴ 280
3
votes
2
replies
3.0k
views
MAST reported warning "Coefficients ... are never estimible and will be dropped."
mast sc-rnaseq
8.5 years ago shao ▴ 100
49 results • Page 1 of 1
Recent ...
Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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