Showing : Mast • reset
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268
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Confidence interval contains 0 but p<0.05
MAST
11 months ago Adelyn • 0
3
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3
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1.5k
views
Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 12 months ago by • 0
0
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1
reply
892
views
Which input data is acceptable for MAST?
SCTransform MAST
updated 13 months ago by ▴ 280 • written 13 months ago by • 0
0
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0
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481
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Z-score Interpretation across components
MAST
14 months ago GJ • 0
0
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0
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520
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MAST package: Most appropriate way to perform lrTest for effect of factor with multiple levels in pairwise manner?
MAST
16 months ago Kelly • 0
0
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0
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784
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Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
16 months ago nhaus ▴ 70
1
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2
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1.3k
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Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 20 months ago by ★ 5.0k • written 20 months ago by • 0
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0
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1.0k
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Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 20 months ago by 68k • written 20 months ago by • 0
0
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0
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524
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Comparing the effects of a condition over time in two seperate tissues
MAST
21 months ago Dillon • 0
0
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1
reply
986
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Mismatch between MAST DE results and expression dot plot
MAST mastR
22 months ago Simon • 0
0
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0
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990
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
2.6 years ago Tadeoye ▴ 20
1
vote
7
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2.7k
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Likelihood ratio test (lrTest) in MAST comparing full to reduced model; and another question on controlling for CDR
MAST
2.7 years ago • updated 2.6 years ago Ken C • 0
0
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0
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811
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MAST for single cell ATAC data
MAST
2.7 years ago zuljiamel1991 ▴ 10
2
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2
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2.9k
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Input for MAST
MAST
2.7 years ago zuljiamel1991 ▴ 10
0
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1
reply
2.4k
views
How to interpret MAST coefficients
DifferentialExpression MAST
updated 5 months ago by ▴ 10 • written 3.1 years ago by • 0
0
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1
reply
1.3k
views
How does MAST caculate log fc
MAST
3.2 years ago • updated 5 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
3.4 years ago Nik Tuzov ▴ 90
0
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0
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1.3k
views
Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
3.5 years ago zroger499 • 0
0
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1
reply
1.6k
views
Low logFCs using MAST for scRNA-seq
MAST
updated 14 months ago by ▴ 70 • written 3.6 years ago by • 0
0
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0
replies
1.2k
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Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
3.8 years ago zroger499 • 0
1
vote
0
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997
views
When I run `zlm` with several clusters, how to compare 1 cluster versus all the others?
MAST
4.3 years ago Dan • 0
0
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1
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1.5k
views
Differentially expressed genes across three different conditions
MAST SingleCell diffGeneAnalysis
updated 4.4 years ago by 68k • written 4.4 years ago by • 0
0
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1
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1.4k
views
MAST zlm shows warning: Coefficients ... are never estimible and will be dropped.
MAST
updated 4.4 years ago by • 0 • written 4.7 years ago by • 0
0
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1
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1.8k
views
How to do pairwise multiple comparisons in MAST
MAST
updated 16 months ago by • 0 • written 4.7 years ago by • 0
0
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2
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1.8k
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MAST compare two conditions with several donors
MAST
updated 4.8 years ago by • 0 • written 5.0 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 TriS ▴ 200
1
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3
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2.0k
views
comparing 2 models with confounders with MAST (scRNA-seq DEA)
scRNA-seq MAST confounders
updated 5.9 years ago by ▴ 280 • written 5.9 years ago by ▴ 10
0
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1
reply
2.0k
views
About getting DE genes using MAST
MAST
updated 5.9 years ago by ▴ 280 • written 5.9 years ago by • 0
0
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0
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1.3k
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DEG among experimental and control group in MAST
MAST DEG batch effects
6.1 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
6.2 years ago Andrew_McDavid ▴ 280
2
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3
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1.8k
views
Logistic regression in MAST - question
mast
updated 6.7 years ago by ▴ 280 • written 6.7 years ago by ▴ 90
2
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7
replies
2.5k
views
Estimation of non-trivial contrasts in MAST
mast
updated 6.7 years ago by ▴ 280 • written 6.7 years ago by ▴ 90
0
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1
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1.6k
views
How can I compute AIC for MAST hurdle model fitted in the whole dataset?
MAST AIC calcuation Parameters single cell hurdle model
updated 20 months ago by ▴ 30 • written 6.8 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
7.2 years ago santos22903 • 0
0
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6
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2.2k
views
Error in zlm function model matrix
MAST
7.5 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 7.6 years ago by ▴ 280 • written 7.6 years ago by ▴ 40
2
votes
1
reply
3.6k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 7.6 years ago by ▴ 280 • written 7.6 years ago by ▴ 20
2
votes
1
reply
1.5k
views
How to load data csv in MAST
mast
7.6 years ago francesco.brundu@gmail.com ▴ 40
0
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4
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1.9k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
7.6 years ago dfm2129 • 0
0
votes
8
replies
2.6k
views
MAST - not getting Hurdle p values
MAST
updated 7.7 years ago by ▴ 280 • written 7.7 years ago by ▴ 10
2
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3
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2.8k
views
Using MAST with DropSeq data
MAST mast dropseq
updated 7.8 years ago by ▴ 280 • written 7.8 years ago by ▴ 10
5
votes
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 7 months ago by ▴ 10 • written 7.9 years ago by ▴ 100
0
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2
replies
1.9k
views
What is the most useful distance measure to use for cell clustering based on MAST deviance residuals?
MAST
8.1 years ago alexanderaivazidis • 0
3
votes
3
replies
3.5k
views
How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 8.2 years ago by ▴ 280 • written 8.2 years ago by ▴ 40
4
votes
1
reply
2.5k
views
NAs in continuous coefficient and fold change in `zlm`
scrnaseq MAST differential gene expression
8.3 years ago Andrew_McDavid ▴ 280
2
votes
1
reply
5.4k
views
Intepretation of Z scores for gene set enrichment analysis in MAST
MAST scRNA GSEA
updated 8.3 years ago by ▴ 280 • written 8.3 years ago by • 0
0
votes
3
replies
2.1k
views
Modeling Dose-response data in MAST
MAST sc-rnaseq scrnaseq
updated 8.3 years ago by ▴ 280 • written 8.3 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
8.6 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
8.6 years ago shao ▴ 100
49 results • Page 1 of 1
Recent ...
Replies
Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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