GitHub
screploading
Load single-cell TCR-seq or scBCR-seq data from various formats into a scRepertoire-compatible object. This process reads VDJ (variable, diversity, joining) receptor contig data from multiple single-cell sequen...
☆ 20查看技能
databases bioinformatics AI 技能
发现 databases bioinformatics 相关 Skills，比较来源仓库和用途，查看适合你工作流的技能说明。
分类目录: databases bioinformatics
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GitHub
torbcellselection
Separates T and non-T cells or B and non-B cells from a mixed cell population. Uses either clonotype percentage from VDJ data, indicator gene expression (CD3 markers for T cells, CD19/CD20 for B cells), custom...
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GitHub
seuratclustering
Performs unsupervised clustering on single-cell RNA-seq data using Seurat. This process finds nearest neighbors, computes UMAP for visualization, and applies Louvain/Leiden algorithms to identify cell clusters....
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GitHub
metabolicexpimputation
Imputes missing/dropout values in scRNA-seq expression data to improve metabolic pathway analysis. This process handles sparsity common in single-cell RNA sequencing data by filling in zero values using advance...
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GitHub
celltypeannotation
Annotates cell clusters with biological cell type labels using multiple methods: direct assignment, ScType, scCATCH, hitype, or CellTypist. This process is essential for interpreting clustering results by assig...
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GitHub
scrnametaboliclandscape
Comprehensive metabolic landscape analysis pipeline for scRNA-seq data. This is an all-in-one process group performing complete metabolic pathway analysis including expression imputation, feature selection, pat...
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GitHub
seuratclusteringofallcells
Performs coarse clustering on ALL cells (including T cells, B cells, and non-T/B cells) before cell type selection. This process identifies broad cell populations to enable subsequent T/B cell selection via `TO...
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GitHub
clustermarkersofallcells
Finds marker genes for clusters of ALL cells before T/B cell selection. This process identifies differentially expressed genes across unsupervised clusters to help identify broad cell types (T cells, B cells, M...
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GitHub
clustermarkers
Finds differentially expressed genes (markers) for clusters of T/B cells using Seurat's FindMarkers function. Performs statistical testing between clusters, identifies cluster-defining genes, and automatically...
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GitHub
pseudobulkdeg
Performs pseudo-bulk differential gene expression analysis using DESeq2 or edgeR. Aggregates single-cell counts to sample-level pseudo-bulk data, then identifies differentially expressed genes between condition...
☆ 20查看技能
GitHub
metabolicpathwayheterogeneity
Analyzes metabolic pathway heterogeneity within cell populations by calculating normalized enrichment scores (NES) for each pathway across different groups. Quantifies metabolic diversity and identifies pathway...
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GitHub
cellcellcommunication
Infer ligand-receptor interactions and cell-cell communication networks from single-cell RNA-seq data using the LIANA+ framework. Identifies potential signaling events between cell types based on gene expressio...
☆ 20查看技能
GitHub
reasoning-inductive
Extract patterns and generalizations from multiple observations. Use when detecting recurring themes, building predictive rules, or identifying systemic behaviors from accumulated data. Produces validated patte...
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GitHub
honest-forget
Graceful memory compression with integrity — summarize before forgetting, never fabricate
☆ 15查看技能
GitHub
naming
Big-endian file naming as semantic binding
☆ 15查看技能
GitHub
planning
Structured task decomposition and tracking.
☆ 15查看技能
GitHub
pixel-detective-exports
Export Pixel Detective UMAP projections with HDBSCAN and manage Qdrant collections via the ingestion API. Use when the user asks for latent space exports, UMAP clustering assets, or collection operations (list/...
☆ 15查看技能
GitHub
market-research-and-competitive-analysis
TAM/SAM/SOM calculation, competitor analysis, and market trends identification. Use when analyzing markets, validating business ideas, or entering new markets.
☆ 14查看技能
GitHub
opentrons-thermocycler
Opentrons Thermocycler Module - automated PCR thermal cycling with independent block (4-99°C) and lid (37-110°C) temperature control, profile execution, and auto-sealing lid support (GEN2) for high-throughput m...
☆ 14查看技能
GitHub
statistical-analyzer
Perform statistical hypothesis testing, regression analysis, ANOVA, and t-tests with plain-English interpretations and visualizations.
☆ 14查看技能
GitHub
crispr-offtarget-predictor
Predicts potential off-target sites for a given sgRNA sequence using mismatch analysis.
☆ 13查看技能
GitHub
gcell-pathway
Pathway enrichment analysis using gcell. Use this skill when users ask about: - Gene set enrichment analysis - GO (Gene Ontology) enrichment - KEGG pathway analysis - Reactome pathway enrichment - Custom pathwa...
☆ 12查看技能
GitHub
gcell-chipatlas
ChIP-Atlas epigenome data query using gcell. Use this skill when users ask about: - Finding ChIP-seq, ATAC-seq, or DNase-seq experiments - Searching for transcription factor binding data - Finding histone modif...
☆ 12查看技能
GitHub
gcell-dna
DNA sequence and motif analysis using gcell. Use this skill when users ask about: - Loading and manipulating DNA sequences - Genome assembly access (hg38, hg19, mm10) - Motif scanning with HOCOMOCO motifs - Wor...
☆ 12查看技能
默认按已收录数据中的 GitHub 仓库 Stars 排序。Stars 属于来源仓库，同一仓库的多个技能可能共享相同数值；它反映仓库关注度，不代表单个技能的安装量或质量评分。