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Showing :
monocle
•
reset
0
votes
2
replies
298
views
Singlecell protein surface (ADT) pseudotime techniques
monocle
slingshot
5 months ago
EspressoKris
▴ 10
0
votes
0
replies
427
views
weighting sample group
monocle
SingleCell
DifferentialExpression
18 months ago
Sogand
• 0
1
vote
4
replies
1.9k
views
Trajectory analysis for single cell sequencing
single cell
trajectory analysis
tscan
monocle
updated 3.6 years ago by
Aaron Lun
★ 28k • written 3.6 years ago by
lirongrossmann
▴ 40
0
votes
1
reply
2.8k
views
How to customize the color in 'plot_cell_trajectory' function
scRNA seq
monocle
updated 3.7 years ago by
Kevin Blighe
★ 3.9k • written 3.7 years ago by
initialqy
• 0
0
votes
1
reply
2.2k
views
Pseudotime analysis on bulk RNASeq using monocle
pseudotime
monocle
dimensionality
4.2 years ago
pbachali
▴ 50
0
votes
1
reply
4.5k
views
monocle error at orderCells
scRNA
monocle
packages
Tutorial
4.6 years ago
444579004
• 0
5
votes
3
replies
1.3k
views
Setting gene expression thresholds for trajectory analysis using Monocle
monocle
differential gene expression
detectgenes function
Tutorial
5.1 years ago
S.Webb6
▴ 40
1
vote
1
reply
1.9k
views
Mean Expression Calculation scRNA-seq (All cells or only Expressed Cells)
scrnaseq
monocle
updated 5.9 years ago by
davide risso
▴ 950 • written 5.9 years ago by
chitsazanalex
▴ 10
0
votes
1
reply
1.4k
views
Converting scater-normalized UMI data to Monocle CellDataSet
scater
scran
umi
monocle
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
supremerulersuraj
• 0
0
votes
1
reply
1.6k
views
monocle: Error in if (cds@expressionFamily@vfamily %in% c("negbinomial", "negbinomial.size"))
monocle
6.1 years ago
Mehmet Ilyas Cosacak
• 0
1
vote
5
replies
2.5k
views
Monocle causes R session to crash
software error
monocle
updated 6.7 years ago by
kevin.rue
▴ 350 • written 8.4 years ago by
galib36
▴ 10
0
votes
0
replies
1.4k
views
Documentation of "branch_states" and "branch_labels" arguments
monocle
6.7 years ago
kevin.rue
▴ 350
0
votes
0
replies
2.4k
views
Monocle plot_pseudotime_heatmap : Error in cutree(tree, cutree_n) : elements of 'k' must be between 1 and 3
R
monocle
6.7 years ago
A.H
• 0
3
votes
1
reply
1.1k
views
Normalizing vs RNA content in scRNAseq data
monocle
scran
updated 6.7 years ago by
Aaron Lun
★ 28k • written 6.7 years ago by
ankur.chakravarthy.10
▴ 40
0
votes
3
replies
1.3k
views
Batch effects and model matrices
deseq2
single cell
monocle
updated 6.7 years ago by
Michael Love
41k • written 6.7 years ago by
bvernot
• 0
0
votes
0
replies
991
views
Basic Question: How to get appropriate pDATA structure in monocle from cufflinks/cuffnorm
cufflinks
monocle
6.8 years ago
alexandriapinto1
▴ 10
0
votes
1
reply
1.1k
views
Monocle group sizes
monocle
7.0 years ago
ribioinfo
▴ 100
0
votes
1
reply
3.5k
views
error in monocle.
monocle
updated 7.0 years ago by
driver.ian
• 0 • written 7.0 years ago by
ikwak
• 0
0
votes
0
replies
1.7k
views
Monocle-strange differential expression results
monocle
differential expression
8.2 years ago
sunil.mangalam
• 0
0
votes
0
replies
1.4k
views
error: no slot of name "expressionFamily" for this object of class "CellDataSet"
monocle
bugs
8.3 years ago
wanghao1993333
• 0
1
vote
2
replies
1.6k
views
Error message running DE-test in Monocle
monocle
cummerbund
DE
rnaseq
updated 8.7 years ago by
ksekine
• 0 • written 8.9 years ago by
Jon Bråte
▴ 250
21 results • Page
1 of 1
Recent ...
Replies
Answer: edgeR, 3 x 2 design with a batch effect and contrasts
by
Gordon Smyth
50k
If you include `0+` in the model formula, then the order of the batch and treatment factors in the model becomes important. You need `0+gro…
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
by
James W. MacDonald
65k
The main goal here is to map human gene symbols to something else, which you can use the `Orthology.eg.db` package to do. You could also us…
Comment: How can I compute AIC for MAST hurdle model fitted in the whole dataset?
by
rproendo
▴ 20
Hi OP, checking in to see if you found a solution to this issue. I'm also interested in using AICs to evaluate model fits in MAST.
Comment: padj-based gradient scale from barplot (clusterProfiler results) does not work p
by
Eva
▴ 10
Oh god, it is right, how I didn't realise before. I got confused with the scientific format of the numbers and I was in a loop for nothing.…
Comment: Downloading count matrix for full recount3 dataset
by
Leonardo Collado Torres
★ 1.0k
AFAIK it's not.
Votes
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
A: HLA genes missing from TxDb.Hsapiens.UCSC.hg38.knownGene
Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
DESeq2 design with multiple factors
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rproendo
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Wolfgang RAFFELSBERGER
▴ 140
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to
Dario Strbenac
★ 1.5k
Scholar
to
Hervé Pagès
16k
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to
Gordon Smyth
50k
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