GitHub
bio-workflows-imc-pipeline
End-to-end imaging mass cytometry workflow from raw acquisitions to spatial cell analysis. Orchestrates image preprocessing, segmentation, phenotyping, and spatial statistics.
☆ 300查看技能
GPTomics AI Skills
GitHub ↗浏览 GPTomics 维护的已发布 AI 技能，比较用途与说明，并通过来源仓库了解安装方式。
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已收录技能
269收录技能的仓库 Stars 合计
80,661仓库 Forks
13,719平均每个技能的仓库 Stars
300同一仓库中的多个技能可能共享 Stars，合计包含重复仓库数据。
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GitHub
bio-spatial-transcriptomics-spatial-visualization
Visualize spatial transcriptomics data using Squidpy and Scanpy. Create tissue plots with gene expression, clusters, and annotations overlaid on histology images.
☆ 300查看技能
GitHub
bio-workflows-scrnaseq-pipeline
End-to-end single-cell RNA-seq workflow from 10X Genomics data to annotated cell types. Covers QC, normalization, clustering, marker detection, and cell type annotation.
☆ 300查看技能
GitHub
bio-read-qc-umi-processing
Extract, process, and deduplicate reads using Unique Molecular Identifiers (UMIs) with umi_tools. Use when library prep includes UMIs and accurate molecule counting is needed, such as in single-cell RNA-seq, lo...
☆ 300查看技能
GitHub
bio-pathway-enrichment-visualization
Visualize enrichment results using enrichplot package functions. Covers dotplot, barplot, cnetplot, emapplot, gseaplot2, ridgeplot, and treeplot for clusterProfiler results.
☆ 300查看技能
GitHub
bio-phylo-tree-io
Read, write, and convert phylogenetic tree files using Biopython Bio.Phylo. Use for parsing Newick, Nexus, PhyloXML, and NeXML tree formats, converting between formats, and handling multiple trees in a single f...
☆ 300查看技能
GitHub
bio-workflows-longread-sv-pipeline
End-to-end workflow for detecting structural variants from long-read sequencing data. Covers ONT/PacBio alignment with minimap2 and SV calling with Sniffles or cuteSV.
☆ 300查看技能
GitHub
bio-phasing-imputation-haplotype-phasing
Phase genotypes into haplotypes using Beagle or SHAPEIT. Resolves which alleles are inherited together on each chromosome. Use when preparing VCF files for imputation, HLA typing, or population genetic analyses...
☆ 300查看技能
GitHub
bio-bedgraph-handling
Create, manipulate, and convert bedGraph files for genome browser visualization. Covers bedGraph format, conversion to/from bigWig, normalization, and signal processing. Use for handling coverage and signal tra...
☆ 300查看技能
GitHub
bio-rna-quantification-featurecounts-counting
Count reads per gene from aligned BAM files using Subread featureCounts. Use when you have BAM files from STAR/HISAT2 and need gene-level counts for DESeq2/edgeR.
☆ 300查看技能
GitHub
bio-expression-matrix-metadata-joins
Merge sample metadata with count matrices and add gene annotations. Use when preparing data for differential expression analysis or visualization.
☆ 300查看技能
GitHub
bio-batch-processing
Process multiple sequence files in batch using Biopython. Use when working with many files, merging/splitting sequences, or automating file operations across directories.
☆ 300查看技能
GitHub
bio-metagenomics-visualization
Visualize metagenomic profiles using R (phyloseq, microbiome) and Python (matplotlib, seaborn). Create stacked bar plots, heatmaps, PCA plots, and diversity analyses. Use when creating publication-quality figur...
☆ 300查看技能
GitHub
bio-paired-end-fastq
Handle paired-end FASTQ files (R1/R2) using Biopython. Use when working with Illumina paired reads, synchronizing pairs, interleaving/deinterleaving, or filtering paired data.
☆ 300查看技能
GitHub
bio-workflows-spatial-pipeline
End-to-end spatial transcriptomics workflow for Visium/Xenium data. Covers data loading, preprocessing, spatial analysis, domain detection, and visualization with Squidpy.
☆ 300查看技能
GitHub
bio-genome-intervals-bigwig-tracks
Create and read bigWig browser tracks for visualizing continuous genomic data. Convert bedGraph to bigWig, extract signal values, and generate coverage tracks using UCSC tools and pyBigWig. Use when preparing c...
☆ 300查看技能
GitHub
bio-single-cell-cell-communication
Infer cell-cell communication networks from scRNA-seq data using CellChat, NicheNet, and LIANA for ligand-receptor interaction analysis.
☆ 300查看技能
GitHub
bio-vcf-manipulation
Merge, concatenate, sort, intersect, and subset VCF files using bcftools. Use when combining variant files, comparing call sets, or restructuring VCF data.
☆ 300查看技能
GitHub
bio-crispr-library-design
CRISPR library design for genetic screens. Covers sgRNA selection, library composition, control design, and oligo ordering. Use when designing custom sgRNA libraries for knockout, activation, or interference sc...
☆ 300查看技能
GitHub
bio-workflows-multiome-pipeline
End-to-end multiome workflow for joint scRNA-seq + scATAC-seq analysis. Covers data loading, separate modality processing, and WNN integration with Seurat/Signac.
☆ 300查看技能
GitHub
bio-proteomics-quantification
Protein quantification from mass spectrometry data including label-free (LFQ, intensity-based), isobaric labeling (TMT, iTRAQ), and metabolic labeling (SILAC) approaches. Use when extracting protein abundances...
☆ 300查看技能
GitHub
bio-flow-cytometry-bead-normalization
Bead-based normalization for CyTOF and high-parameter flow cytometry. Covers EQ bead normalization, signal drift correction, and batch normalization. Use when correcting instrument drift in CyTOF or harmonizing...
☆ 300查看技能
GitHub
bio-genome-assembly-assembly-qc
Assess genome assembly quality using QUAST for contiguity metrics and BUSCO for completeness. Essential for evaluating assembly success and comparing assemblers.
☆ 300查看技能
GitHub
bio-spatial-transcriptomics-image-analysis
Process and analyze tissue images from spatial transcriptomics data using Squidpy. Extract image features, segment cells/nuclei, and compute morphological features from H&E or IF images.
☆ 300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。