Run any Skill in Manus with one click

bioskills-dimensionality-reduction-plots

Stars102

Forks13

UpdatedJuly 6, 2026 at 12:06

Choose and produce publication-quality 2D dimensionality-reduction plots (PCA, t-SNE, UMAP, PHATE) with deliberate hyperparameters and honest interpretation limits.

Installation

Install with Codex or Claude Copy this prompt, paste it into Codex, Claude, or another assistant, and let it review the skill page and install it for you.

Run Skill in Manus

Source

ai4nucleome

ai4nucleome/BioMaster

View GitHub Repository View Creator Repositories

Download

Run Skill in Manus

Related occupationsSOC

Based on SOC occupation classification

Biological Scientists, All OtherLife, Physical, and Social Science Occupations·SOC 19-1029

File Explorer

4 files

SKILL.md

readonly

name	bioskills-dimensionality-reduction-plots
description	Choose and produce publication-quality 2D dimensionality-reduction plots (PCA, t-SNE, UMAP, PHATE) with deliberate hyperparameters and honest interpretation limits.
domain	single-cell
primary_tool	scanpy
methods	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2"]
macro_tags	["dimensionality-reduction","visualization","pca","umap","tsne","phate","reproducibility"]
micro_tags	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2","method-selection","normalization","scaling","pca","variance-explained","loadings","batch-diagnostic","tsne","perplexity","pca-initialization","umap","n-neighbors","min-dist","reproducibility","trajectory","diffusion","visualization","saving","dpi","interpretation"]
source	bioskills-dimensionality-reduction-plots
status	active
enabled	true

Bioskills Dimensionality Reduction Plots

More from this repository

same repository

biomaster

ai4nucleome/BioMaster

Load BioMaster as one integrated skill-driven bioinformatics assistant.

2026-07-08102

biomaster

ai4nucleome/BioMaster

BioMaster conversational bioinformatics assistant; starts workflows only after execution intent or empty activation.

2026-07-08102

bioclaw-cell-annotation

ai4nucleome/BioMaster

Automated and marker-guided single-cell cell type annotation using CellTypist, marker review, reference transfer, and confidence-aware label curation.

2026-07-06102

bioclaw-hub-cell-communication

ai4nucleome/BioMaster

Ligand-receptor communication inference in single-cell or spatial data with sender-receiver summaries and cautious interpretation.

2026-07-06102

bioclaw-hub-multiome-scatac

ai4nucleome/BioMaster

Workflow for paired or integrated single-cell RNA and ATAC analysis with multimodal latent spaces and regulatory interpretation.

2026-07-06102

bioclaw-hub-spatial-transcriptomics

ai4nucleome/BioMaster

Workflow for spatial transcriptomics preprocessing, domain detection, deconvolution, neighborhood analysis, and publication-ready spatial maps.

2026-07-06102

name	bioskills-dimensionality-reduction-plots
description	Choose and produce publication-quality 2D dimensionality-reduction plots (PCA, t-SNE, UMAP, PHATE) with deliberate hyperparameters and honest interpretation limits.
domain	single-cell
primary_tool	scanpy
methods	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2"]
macro_tags	["dimensionality-reduction","visualization","pca","umap","tsne","phate","reproducibility"]
micro_tags	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2","method-selection","normalization","scaling","pca","variance-explained","loadings","batch-diagnostic","tsne","perplexity","pca-initialization","umap","n-neighbors","min-dist","reproducibility","trajectory","diffusion","visualization","saving","dpi","interpretation"]
source	bioskills-dimensionality-reduction-plots
status	active
enabled	true