Showing : Mast • reset
3
votes
3
replies
827
views
Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 25 days ago by • 0
0
votes
1
reply
241
views
Which input data is acceptable for MAST?
SCTransform MAST
updated 6 weeks ago by ▴ 270 • written 6 weeks ago by • 0
0
votes
0
replies
315
views
Z-score Interpretation across components
MAST
11 weeks ago Greg • 0
0
votes
0
replies
261
views
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
votes
0
replies
381
views
Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
4 months ago nhaus ▴ 70
1
vote
2
replies
616
views
Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 8 months ago by ★ 4.5k • written 8 months ago by • 0
0
votes
0
replies
582
views
Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 8 months ago by 67k • written 8 months ago by • 0
0
votes
0
replies
334
views
Comparing the effects of a condition over time in two seperate tissues
MAST
9 months ago Dillon • 0
0
votes
1
reply
597
views
Mismatch between MAST DE results and expression dot plot
MAST mastR
10 months ago Simon • 0
0
votes
0
replies
672
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue logFC lrtest MAST
19 months ago Tadeoye ▴ 20
1
vote
7
replies
1.8k
views
Likelihood ratio test (lrTest) in MAST comparing full to reduced model; and another question on controlling for CDR
MAST
20 months ago Ken C • 0
0
votes
0
replies
573
views
MAST for single cell ATAC data
MAST
21 months ago zuljiamel1991 ▴ 10
2
votes
2
replies
2.0k
views
Input for MAST
MAST
21 months ago • updated 20 months ago zuljiamel1991 ▴ 10
0
votes
0
replies
1.3k
views
How to interpret MAST coefficients
DifferentialExpression MAST
2.1 years ago Ismail • 0
0
votes
0
replies
634
views
How does MAST caculate log fc
MAST
2.3 years ago Chenghao • 0
0
votes
0
replies
859
views
Differential expression with single cell data: any good two component (hurdle) models recently?
SingleCellWorkflow DifferentialExpression SingleCell SingleCellMultiModal MAST
2.4 years ago Nik Tuzov ▴ 90
0
votes
0
replies
937
views
Performing DGE analysis with MAST on a variable with more than 2 levels
MAST DEG SingleCell
2.5 years ago zroger499 • 0
0
votes
1
reply
1.2k
views
Low logFCs using MAST for scRNA-seq
MAST
updated 12 weeks ago by ▴ 70 • written 2.7 years ago by • 0
0
votes
0
replies
963
views
Issues geting meaninfull results for single cell DGE using MAST
MAST SingleCell
2.8 years ago zroger499 • 0
1
vote
0
replies
793
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
votes
1
reply
1.1k
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
votes
1
reply
1.1k
views
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
votes
1
reply
1.4k
views
How to do pairwise multiple comparisons in MAST
MAST
updated 4 months ago by • 0 • written 3.8 years ago by • 0
0
votes
2
replies
1.4k
views
MAST compare two conditions with several donors
MAST
updated 3.8 years ago by • 0 • written 4.0 years ago by • 0
0
votes
3
replies
1.7k
views
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
votes
1
reply
1.6k
views
About getting DE genes using MAST
MAST
updated 4.9 years ago by ▴ 270 • written 4.9 years ago by • 0
0
votes
0
replies
1.1k
views
DEG among experimental and control group in MAST
MAST DEG batch effects
5.2 years ago chendianyu • 0
0
votes
1
reply
2.0k
views
Minimum number of cells required for the MAST
MAST scRNAseq differential expression
5.2 years ago Andrew_McDavid ▴ 270
2
votes
3
replies
1.4k
views
Logistic regression in MAST - question
mast
updated 5.7 years ago by ▴ 270 • written 5.7 years ago by ▴ 90
2
votes
7
replies
2.0k
views
Estimation of non-trivial contrasts in MAST
mast
updated 5.7 years ago by ▴ 270 • written 5.7 years ago by ▴ 90
0
votes
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
votes
2
replies
1.4k
views
Warning in bayes fit in MAST GSEA
MAST GSEA bayesglm.fit
6.2 years ago santos22903 • 0
0
votes
6
replies
1.7k
views
Error in zlm function model matrix
MAST
6.5 years ago jka8119 ▴ 10
2
votes
4
replies
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
2.8k
views
MAST: testing differential expression with a nested factorial design
MAST single-cell rna-seq
updated 6.6 years ago by ▴ 270 • written 6.6 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
votes
4
replies
1.5k
views
MAST: What does the function gseaAfterBoot do exactly?
MAST
6.7 years ago dfm2129 • 0
0
votes
8
replies
2.2k
views
MAST - not getting Hurdle p values
MAST
updated 6.7 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
7.1 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 7.3 years ago by ▴ 270 • written 7.3 years ago by • 0
0
votes
3
replies
1.7k
views
Modeling Dose-response data in MAST
MAST sc-rnaseq scrnaseq
updated 7.3 years ago by ▴ 270 • written 7.3 years ago by • 0
0
votes
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
7.6 years ago shao ▴ 100
48 results • Page 1 of 1
Recent ...
Replies
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
Oh, i didn't realize there is another method in the mix here. I would not necessarily trust this "batch correction" method, and suspect o…
Comment: Identifying potentially associated gene set to drug response using GSVA by Kent • 0
Hi @robertc thanks for the reply. I should have explained to you the context first. I am testing over a hundred drugs on patient samples (s…
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification by James W. MacDonald 67k
You can easily answer this question yourself. ``` > library(BiocPkgTools) Loading required package: htmlwidgets > depdf <- buildPkgDe…
Answer: HilBertVis install error by James W. MacDonald 67k
It appears you have compiler flags set that preclude you from compiling (-Werror=format-security). If I install `HilbertVis` on my work box…
Comment: Identical samples after deseq2 batch effect removal by maripane • 0
Thanks Michael for quick reply. Actually, I also questioned this but later i saw this issue happens within another cluster and different c…
Votes
A: TopGO: How to retrieve the gene list related to a GO ID ?
A: Error in DESeqDataSet : some values in assay are not integers
A: correcting the batch effects in Limma and SVA
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
Awards • All
Popular Question to alexandre.blais ▴ 50
Popular Question to Talip Zengin ▴ 10
Popular Question to Fred Hutch (Recruiting) ▴ 40
Scholar to Gordon Smyth 51k
Popular Question to chase.mateusiak • 0
Locations • All
United States, 2 minutes ago
EMBL Heidelberg, 9 minutes ago
United States, 10 minutes ago
Chile, 13 minutes ago
United States, 16 minutes ago
Traffic: 799 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6