Showing : monocle • reset
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Monocle causes R session to crash
software error monocle
updated 6.8 years ago by ▴ 350 • written 8.5 years ago by ▴ 10
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2
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1.7k
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Error message running DE-test in Monocle
monocle cummerbund DE rnaseq
updated 8.8 years ago by • 0 • written 9.0 years ago by ▴ 250
0
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3.5k
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error in monocle.
monocle
updated 7.1 years ago by • 0 • written 7.1 years ago by • 0
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3
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1.3k
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Batch effects and model matrices
deseq2 single cell monocle
updated 6.8 years ago by 41k • written 6.8 years ago by • 0
3
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1
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1.1k
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Normalizing vs RNA content in scRNAseq data
monocle scran
updated 6.8 years ago by ★ 28k • written 6.8 years ago by ▴ 40
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1
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1.7k
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monocle: Error in if (cds@expressionFamily@vfamily %in% c("negbinomial", "negbinomial.size"))
monocle
6.2 years ago Mehmet Ilyas Cosacak • 0
0
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1
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1.4k
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Converting scater-normalized UMI data to Monocle CellDataSet
scater scran umi monocle
updated 6.0 years ago by ★ 28k • written 6.0 years ago by • 0
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1
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2.0k
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Mean Expression Calculation scRNA-seq (All cells or only Expressed Cells)
scrnaseq monocle
updated 6.0 years ago by ▴ 950 • written 6.0 years ago by ▴ 10
0
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1
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2.9k
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How to customize the color in 'plot_cell_trajectory' function
scRNA seq monocle
updated 3.8 years ago by ★ 3.9k • written 3.8 years ago by • 0
1
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4
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2.0k
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Trajectory analysis for single cell sequencing
single cell trajectory analysis tscan monocle
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 40
1
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1
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160
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Differentially expressed genes in monocle pseudotime
monocle
updated 8 days ago by 50k • written 11 days ago by • 0
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2.3k
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Pseudotime analysis on bulk RNASeq using monocle
pseudotime monocle dimensionality
4.3 years ago pbachali ▴ 50
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2
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328
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Singlecell protein surface (ADT) pseudotime techniques
monocle slingshot
6 months ago EspressoKris ▴ 10
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1.4k
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error: no slot of name "expressionFamily" for this object of class "CellDataSet"
monocle bugs
8.4 years ago wanghao1993333 • 0
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Monocle-strange differential expression results
monocle differential expression
8.3 years ago sunil.mangalam • 0
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448
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weighting sample group
monocle SingleCell DifferentialExpression
19 months ago Sogand • 0
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1.1k
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Monocle group sizes
monocle
7.1 years ago ribioinfo ▴ 100
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Basic Question: How to get appropriate pDATA structure in monocle from cufflinks/cuffnorm
cufflinks monocle
6.9 years ago alexandriapinto1 ▴ 10
5
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3
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1.4k
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Setting gene expression thresholds for trajectory analysis using Monocle
monocle differential gene expression detectgenes function Tutorial
5.2 years ago S.Webb6 ▴ 40
0
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1
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4.6k
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monocle error at orderCells
scRNA monocle packages Tutorial
4.7 years ago 444579004 • 0
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0
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2.5k
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Monocle plot_pseudotime_heatmap : Error in cutree(tree, cutree_n) : elements of 'k' must be between 1 and 3
R monocle
6.8 years ago A.H • 0
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Documentation of "branch_states" and "branch_labels" arguments
monocle
6.8 years ago kevin.rue ▴ 350
22 results • Page 1 of 1
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Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by shuwangxinze1996 • 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
This comment helps.
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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