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Showing :
splatter
•
reset
5
votes
2
replies
1.6k
views
Accessing normalized counts
splatter
singlecellexperiment
scater
6.0 years ago
luke.zappia
▴ 50
4
votes
2
replies
935
views
Splatter: simulating fold changes for specific genes?
splatter
5.5 years ago
Brian Haas
▴ 90
3
votes
3
replies
2.3k
views
is SCEset fully abandoned in scran?
scran
scater
splatter
normalization
updated 6.5 years ago by
davis
▴ 90 • written 6.5 years ago by
wt215
• 0
2
votes
3
replies
1.3k
views
splatter simulating paths
splatter
single cell
6.0 years ago
nikolaspapadop
▴ 10
1
vote
1
reply
962
views
Any pointers on simulating cell outliers?
splatter
simulation
5.9 years ago
luke.zappia
▴ 50
1
vote
2
replies
830
views
Splatter: which parameters can cause individual variability( expression levels of genes should change across samples)
SingleCellExperiment
splatter
2.4 years ago
Fatima
• 0
0
votes
1
reply
644
views
change values on Differential Expression parameters
splatter
updated 4.5 years ago by
luke.zappia
▴ 50 • written 4.5 years ago by
jp3770
• 0
0
votes
1
reply
718
views
DE analysis packages not detecting Splat DE simulated genes
splatter
updated 3.7 years ago by
luke.zappia
▴ 50 • written 3.7 years ago by
olympia.hardy13
• 0
0
votes
2
replies
881
views
I cannot install the splatter on colab
splatter
biocmanager
written 3.1 years ago by
Tianyu
• 0
0
votes
3
replies
2.0k
views
Trouble installing splatter
installation
splatter
7.0 years ago • updated 6.9 years ago
luke.zappia
▴ 50
0
votes
1
reply
957
views
Splatter (unknown correlation between gene expression level in different cell types)
SingleCellData
splatter
updated 24 months ago by
luke.zappia
▴ 50 • written 24 months ago by
Fatima
• 0
0
votes
1
reply
909
views
Robustness of Splat cell grouping
splatter
6.9 years ago
luke.zappia
▴ 50
0
votes
1
reply
1.1k
views
Control group size
splatter
6.5 years ago
luke.zappia
▴ 50
0
votes
1
reply
1.1k
views
Splatter: How to simulate cells in different groups and different path at the same time?
splatter
6.4 years ago
luke.zappia
▴ 50
0
votes
1
reply
874
views
Simulating paths returns identical values
splatter
6.0 years ago
luke.zappia
▴ 50
0
votes
5
replies
1.2k
views
How to use Splatter to simulate a known number of DE genes in only two groups of cells ?
splatter
Splatter
updated 5.2 years ago by
luke.zappia
▴ 50 • written 5.2 years ago by
chenxofhit
• 0
16 results • Page
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
swbarnes2
★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error
by
James W. MacDonald
65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
Answer: Log-cpm values from limma
Answer: Log-cpm values from limma
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