Showing : MAST • reset
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41
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Confidence interval contains 0 but p<0.05
MAST
3 days ago Adelyn • 0
3
votes
3
replies
866
views
Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 6 weeks ago by • 0
0
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1
reply
262
views
Which input data is acceptable for MAST?
SCTransform MAST
updated 9 weeks ago by ▴ 270 • written 9 weeks ago by • 0
0
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0
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324
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Z-score Interpretation across components
MAST
3 months ago Greg • 0
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0
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272
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MAST package: Most appropriate way to perform lrTest for effect of factor with multiple levels in pairwise manner?
MAST
4 months ago Kelly • 0
0
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0
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398
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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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631
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Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 8 months ago by ★ 4.6k • written 8 months ago by • 0
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0
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604
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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
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0
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336
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Comparing the effects of a condition over time in two seperate tissues
MAST
9 months ago Dillon • 0
0
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1
reply
610
views
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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696
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How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
19 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 • updated 20 months ago Ken C • 0
0
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0
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578
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MAST for single cell ATAC data
MAST
21 months ago zuljiamel1991 ▴ 10
2
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2
replies
2.0k
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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
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0
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640
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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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865
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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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958
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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
reply
1.2k
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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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975
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Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
2.9 years ago zroger499 • 0
1
vote
0
replies
796
views
When I run `zlm` with several clusters, how to compare 1 cluster versus all the others?
MAST
3.3 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 3.4 years ago by 67k • written 3.4 years ago by • 0
0
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1
reply
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
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How to do pairwise multiple comparisons in MAST
MAST
updated 4 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 3.8 years ago by • 0 • written 4.1 years ago by • 0
0
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3
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1.7k
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MAST invalid Hypothesis, class objectORconnection error
R MAST scRNASeq
4.3 years ago TriS ▴ 200
1
vote
3
replies
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
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1.5k
views
Logistic regression in MAST - question
mast
updated 5.7 years ago by ▴ 270 • written 5.7 years ago by ▴ 90
2
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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 8 months ago by ▴ 30 • written 5.8 years ago by • 0
0
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2
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1.4k
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Warning in bayes fit in MAST GSEA
MAST GSEA bayesglm.fit
6.3 years ago santos22903 • 0
0
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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 6.6 years ago by ▴ 270 • written 6.6 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 6.6 years ago by ▴ 270 • written 6.7 years ago by ▴ 20
2
votes
1
reply
1.2k
views
How to load data csv in MAST
mast
6.6 years ago francesco.brundu@gmail.com ▴ 40
0
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4
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1.5k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
6.7 years ago dfm2129 • 0
0
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8
replies
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
2.3k
views
Using MAST with DropSeq data
MAST mast dropseq
updated 6.8 years ago by ▴ 270 • written 6.8 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 6.9 years ago by ▴ 270 • written 6.9 years ago by ▴ 100
0
votes
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 7.2 years ago by ▴ 270 • written 7.2 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
Comment: Running multiple KNN queries in parallel by SamGG ▴ 360
Thank you for your detailed answer, I appreciate it and your work.
Answer: Running multiple KNN queries in parallel by Aaron Lun ★ 28k
That is correct - you can't pass the prebuilt objects to different processes. Maybe `MulticoreParam()` might work on POSIX systems but I'm …
Answer: RSubread output significantly different from bash Subread output by Gordon Smyth 52k
The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…
Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square by Michael Love 43k
I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…
Comment: sva: get a sv for RIN scores by gabriel.hoffman ▴ 170
Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.
Votes
Answer: Running multiple KNN queries in parallel
Answer: Running multiple KNN queries in parallel
Answer: RSubread output significantly different from bash Subread output
Answer: RSubread output significantly different from bash Subread output
Answer: How to annotate a limma Elist raw class object with an annotation file
Awards • All
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