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RGLab
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MAST
Tools and methods for analysis of single cell assay data in R
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zlm() still depends on SingleCellAssay
#91
uhlitz
closed
6 years ago
6
No significant DE genes after MAST (FDR < 0.05)
#90
fbrundu
opened
6 years ago
7
How to suppress the messages in de analysis?
#89
Vivianstats
closed
6 years ago
1
gseaAfterBoot function details
#88
dmoaks
closed
6 years ago
3
Using zlm without sca object
#87
ghost
closed
6 years ago
17
Largest model coefficients for barely expressed genes?
#86
gabprg
opened
6 years ago
4
MAST error with Seurat
#85
biounix
closed
6 years ago
4
Almost all genes are differentially expressed
#84
Jerry001
opened
6 years ago
6
Requirement of Input data
#83
cwang131
closed
7 years ago
2
non-conformable arrays error in MAST::summary v1.2.1
#82
eleanorahowe
closed
7 years ago
2
Change to a meaningful progress bar from zlm?
#81
Shians
closed
6 years ago
2
Convert MAST-intro vignette to rmarkdown
#80
gfinak
closed
7 years ago
0
NA in logFC
#79
yang-william
closed
7 years ago
2
R parallelization and MAST: any known solutions?
#78
eleanorahowe
closed
6 years ago
14
Weird behavior of statistical test for the continuous components
#77
jsialar
closed
7 years ago
4
NAs in continuous coefficient and fold change
#76
ghost
closed
6 years ago
5
MAST conflicts with sparse matrix package Matrix
#75
ghost
closed
3 years ago
5
Merge missing changes from Bioc/master to origin master via diff patches
#74
gfinak
closed
7 years ago
1
DESCRIPTION lacks SummarizedExperiment dependency
#73
stela2502
closed
7 years ago
6
Deviance residuals after inclusion of covariates still include variation from covariates
#72
ghost
closed
7 years ago
4
Using MAST for Time Course analysis for RNAseq data
#71
Rahel14350
closed
7 years ago
2
patch to code converting mast classic to single cell assay
#70
gfinak
closed
7 years ago
0
Refactoring of thresholding code
#69
amcdavid
opened
7 years ago
0
Construct a data package for MAST that can be leveraged for unit and regression testing
#68
gfinak
opened
7 years ago
0
thresholds
#67
ghost
closed
7 years ago
2
ggplot 2.2.0 broke stat_ell
#66
amcdavid
closed
7 years ago
2
Need function to convert old MASTClassic objects to new MAST objects
#65
gfinak
closed
7 years ago
2
thresholdSCRNACountMatrix is brittle with small sample sizes
#64
amcdavid
closed
8 years ago
3
vignette broken at the very beginning
#63
zji90
closed
8 years ago
4
Check for NAs in modelMatrix in zlm
#62
amcdavid
opened
8 years ago
0
thresholdSCRNACountMatrix
#61
jhsiao999
closed
8 years ago
4
modify vignette / code so it works with summarizedExpt
#60
gfinak
closed
8 years ago
1
Extend SummarizedExperiment to create SingleCellAssay class
#59
gfinak
closed
8 years ago
3
Fix typos
#58
seaaan
closed
8 years ago
0
lrTest(ZlmFIt, character) seems borked
#57
amcdavid
closed
7 years ago
10
Fix ARM dependence
#56
amcdavid
closed
9 years ago
1
GSEA needs a more friendly wrapper
#55
amcdavid
closed
8 years ago
0
getLogFC semantics could be improved
#54
amcdavid
opened
9 years ago
0
Exprs is confusing because it departs from ExpressionSet semantics
#53
amcdavid
closed
8 years ago
3
Addlayer should modify object in place
#52
amcdavid
closed
8 years ago
1
getLogFC returns primerid that is just a sequence of numbers instead of the primerid in zlm object
#51
myajima
closed
9 years ago
2
NA in the log fold change calculation
#50
myajima
closed
9 years ago
2
fData replacement
#49
myajima
closed
8 years ago
1
thresholdSCRNACounts issues
#48
amcdavid
closed
9 years ago
1
melt.SingleCellAssay breaks reshape2::melt
#47
davismcc
closed
9 years ago
2
Documentation for thresholdSCRANCountMatrix
#46
amcdavid
closed
8 years ago
0
NA
#45
gfinak
closed
10 years ago
0
GSEA improvements
#44
amcdavid
opened
10 years ago
3
Better methods for importing RNAseq
#43
amcdavid
closed
9 years ago
1
Add more examples to vignette
#42
amcdavid
closed
8 years ago
0
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