Monocle - GitHub Pages
WEBMany researchers are using single-cell RNA-Seq to discover new cell types. Monocle can help you purify them or characterize them further by identifying key marker genes that you can use in follow up experiments such as immunofluorescence or flow sorting.
Bioconductor - monocle
WEBMonocle performs differential expression and time-series analysis for single-cell expression experiments. It orders individual cells according to progress through a biological process, without knowing ahead of time which genes define progress through that process.
Monocle - GitHub Pages
WEBMonocle orders cells by learning an explicit principal graph from the single cell genomics data with advanced machine learning techniques (Reversed Graph Embedding), which robustly and accurately resolves complicated biological processes.
What's new in Monocle 3 - GitHub Pages
WEBMonocle 3 has been re-engineered to analyze large, complex single-cell datasets. The algorithms at the core of Monocle 3 are highly scalable and can handle millions of cells. Monocle 3 will add some powerful new features that enable the analysis of organism- or embryo-scale experiments:
Building trajectories with Monocle 3 • Signac - Stuart Lab
WEBAug 20, 2024 · In this vignette we will demonstrate how to construct cell trajectories with Monocle 3 using single-cell ATAC-seq data. Please see the Monocle 3 website for information about installing Monocle 3.
Reversed graph embedding resolves complex single-cell …
WEBAug 21, 2017 · Monocle 2 uses reversed graph embedding to automatically learn complex, branched pseudotime trajectories of differentiation or cellular state changes from single-cell expression data.
WEBThe package monocle provides tools for analyzing single-cell expression experiments. Monocle introduced the strategy of ordering single cells in pseudotime, placing them along a trajectory corresponding to a biological process such as cell differentiation.
WEBMar 13, 2024 · Monocle performs differential expression and time-series analysis for single-cell expression experiments. It orders individual cells according to progress through a biological process, without knowing ahead of time …
The dynamics and regulators of cell fate decisions are ... - Nature
WEBMar 23, 2014 · Here we describe Monocle, an unsupervised algorithm that increases the temporal resolution of transcriptome dynamics using single-cell RNA-Seq data collected at multiple time points.
Inferring single cell trajectories with Monocle3 (R)
WEBApr 12, 2023 · Overview. Questions: How do I perform a trajectory analysis using Monocle3 in R? What should I do when Galaxy’s Monocle tools are not enough? How do I assign cell types to the clusters? How do I infer lineage relationships between clusters, without a time series? How do I perform batch correction and differential expression analysis in Monocle?