Showing : MAST • reset
4
votes
3
replies
1.9k
views
single-cells RNA-seq analysis by MAST with unbalanced group size
mast single-cell rna-seq differential analysis
updated 6.3 years ago by ▴ 270 • written 6.3 years ago by ▴ 100
4
votes
1
reply
1.8k
views
NAs in continuous coefficient and fold change in `zlm`
scrnaseq MAST differential gene expression
6.7 years ago Andrew_McDavid ▴ 270
3
votes
3
replies
2.4k
views
How do you test a contrast in MAST?
MAST single-cell differential gene expression
updated 6.6 years ago by ▴ 270 • written 6.6 years ago by ▴ 40
3
votes
2
replies
2.2k
views
MAST reported warning "Coefficients ... are never estimible and will be dropped."
mast sc-rnaseq
7.1 years ago • updated 7.0 years ago shao ▴ 100
2
votes
1
reply
4.2k
views
Intepretation of Z scores for gene set enrichment analysis in MAST
MAST scRNA GSEA
updated 6.8 years ago by ▴ 270 • written 6.8 years ago by • 0
2
votes
1
reply
1.1k
views
How to load data csv in MAST
mast
6.0 years ago francesco.brundu@gmail.com ▴ 40
2
votes
1
reply
2.3k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 6.0 years ago by ▴ 270 • written 6.1 years ago by ▴ 20
2
votes
3
replies
2.0k
views
Using MAST with DropSeq data
MAST mast dropseq
updated 6.2 years ago by ▴ 270 • written 6.2 years ago by ▴ 10
2
votes
3
replies
1.2k
views
Logistic regression in MAST - question
mast
updated 5.1 years ago by ▴ 270 • written 5.1 years ago by ▴ 80
2
votes
7
replies
1.7k
views
Estimation of non-trivial contrasts in MAST
mast
updated 5.1 years ago by ▴ 270 • written 5.1 years ago by ▴ 80
2
votes
4
replies
1.8k
views
Interpretation of cngeneson when doing differential expression analysis in MAST
mast differential gene expression
updated 6.0 years ago by ▴ 270 • written 6.0 years ago by ▴ 40
1
vote
2
replies
266
views
Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 5 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
1
vote
3
replies
1.2k
views
comparing 2 models with confounders with MAST (scRNA-seq DEA)
scRNA-seq MAST confounders
updated 4.3 years ago by ▴ 270 • written 4.3 years ago by ▴ 10
1
vote
2
replies
1.2k
views
Input for MAST
MAST
14 months ago • updated 13 months ago zuljiamel1991 ▴ 10
1
vote
0
replies
635
views
When I run `zlm` with several clusters, how to compare 1 cluster versus all the others?
MAST
2.7 years ago Dan • 0
1
vote
7
replies
1.3k
views
Likelihood ratio test (lrTest) in MAST comparing full to reduced model; and another question on controlling for CDR
MAST
13 months ago Ken C • 0
0
votes
2
replies
1.2k
views
Warning in bayes fit in MAST GSEA
MAST GSEA bayesglm.fit
5.6 years ago santos22903 • 0
0
votes
1
reply
1.1k
views
How can I compute AIC for MAST hurdle model fitted in the whole dataset?
MAST AIC calcuation Parameters single cell hurdle model
updated 5 weeks ago by ▴ 20 • written 5.2 years ago by • 0
0
votes
1
reply
1.3k
views
Removal of batch effects before non-linear clustering for scRNAseq
scrnaseq MAST
7.0 years ago Andrew_McDavid ▴ 270
0
votes
3
replies
1.5k
views
MAST invalid Hypothesis, class objectORconnection error
R MAST scRNASeq
3.7 years ago TriS ▴ 200
0
votes
1
reply
1.6k
views
Minimum number of cells required for the MAST
MAST scRNAseq differential expression
4.6 years ago Andrew_McDavid ▴ 270
0
votes
0
replies
873
views
DEG among experimental and control group in MAST
MAST DEG batch effects
4.6 years ago chendianyu • 0
0
votes
1
reply
1.2k
views
About getting DE genes using MAST
MAST
updated 4.3 years ago by ▴ 270 • written 4.3 years ago by • 0
0
votes
0
replies
468
views
How does MAST caculate log fc
MAST
20 months ago Chenghao • 0
0
votes
2
replies
1.1k
views
MAST compare two conditions with several donors
MAST
updated 3.2 years ago by • 0 • written 3.5 years ago by • 0
0
votes
0
replies
1.0k
views
How to do pairwise multiple comparisons in MAST
MAST
3.2 years ago sysumed3615 • 0
0
votes
1
reply
850
views
MAST zlm shows warning: Coefficients ... are never estimible and will be dropped.
MAST
updated 2.9 years ago by • 0 • written 3.2 years ago by • 0
0
votes
1
reply
279
views
Mismatch between MAST DE results and expression dot plot
MAST mastR
3 months ago Simon • 0
0
votes
0
replies
923
views
How to interpret MAST coefficients
DifferentialExpression MAST
18 months ago Ismail • 0
0
votes
0
replies
730
views
Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
2.3 years ago zroger499 • 0
0
votes
0
replies
872
views
Low logFCs using MAST for scRNA-seq
MAST
2.1 years ago learner_MD • 0
0
votes
1
reply
929
views
Differentially expressed genes across three different conditions
MAST SingleCell diffGeneAnalysis
updated 2.8 years ago by 65k • written 2.8 years ago by • 0
0
votes
0
replies
417
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
12 months ago Tadeoye ▴ 20
0
votes
0
replies
188
views
Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 7 weeks ago by 65k • written 7 weeks ago by • 0
0
votes
0
replies
396
views
MAST for single cell ATAC data
MAST
14 months ago zuljiamel1991 ▴ 10
0
votes
0
replies
162
views
Comparing the effects of a condition over time in two seperate tissues
MAST
9 weeks ago Dillon • 0
0
votes
0
replies
669
views
Differential expression with single cell data: any good two component (hurdle) models recently?
SingleCellWorkflow DifferentialExpression SingleCell SingleCellMultiModal MAST
22 months ago Nik Tuzov ▴ 80
0
votes
0
replies
701
views
Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
23 months ago zroger499 • 0
0
votes
8
replies
1.7k
views
MAST - not getting Hurdle p values
MAST
updated 6.2 years ago by ▴ 270 • written 6.2 years ago by ▴ 10
0
votes
4
replies
1.3k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
6.1 years ago dfm2129 • 0
0
votes
2
replies
1.3k
views
What is the most useful distance measure to use for cell clustering based on MAST deviance residuals?
MAST
6.6 years ago alexanderaivazidis • 0
0
votes
3
replies
1.4k
views
Modeling Dose-response data in MAST
MAST sc-rnaseq scrnaseq
updated 6.8 years ago by ▴ 270 • written 6.8 years ago by • 0
0
votes
6
replies
1.4k
views
Error in zlm function model matrix
MAST
6.0 years ago jka8119 ▴ 10
43 results • Page 1 of 1
Recent ...
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 30
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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