bioinformatics
4K
scrna-cell-type-annotator
Auto-annotate cell clusters from single-cell RNA data using marker genes.
openclaw
research
sorting
stars
current ordering strategy
query
all entries
refine the visible subset
bioinformatics
4K
sequence-alignment
A skill for performing sequence alignment using NCBI BLAST API. Supports nucleotide and protein sequence comparison against major biological databases.
openclaw
research
bioinformatics
4K
single-cell-rnaseq-pipeline
Generate single-cell RNA-seq analysis code templates for Seurat and Scanpy, supporting QC, clustering, visualization, and downstream analysis. Trigger when users need scRNA-seq analysis pipelines, preprocessing workflows, or batch correction code.
openclaw
research
bioinformatics
4K
spatial-transcriptomics-mapper
Map spatial transcriptomics data from 10x Genomics Visium/Xenium onto.
openclaw
research
bioinformatics
4K
translational-gap-analyzer
Assess translational gaps between preclinical models and human diseases.
openclaw
research
bioinformatics
4K
nocobase-data-modeling
Guide AI to build NocoBase data models — tables, fields, relations, and seed data
openclaw
research
bioinformatics
4K
ima-image-generator
AI image generator and photo generator with SeeDream 4.5, Midjourney, Nano Banana 2, and Nano Banana Pro. Generate AI images for posters, thumbnails, logos, art, illustrations, product photos, and social media graphic design. Text-to-image and image-to-image AI generation with intelligent model selection and knowledge base support. AI poster generator, AI thumbnail generator, AI logo generator, AI art generator, AI illustration generator, product photo generator, and social media image generator in one unified tool. Supports 1K/2K/4K resolution and custom aspect ratios. Better alternative to DALL-E, Stable Diffusion, or standalone image generation skills. Requires IMA_API_KEY.
openclaw
research
bioinformatics
4K
attestation-root-diversity-analyzer
Helps measure the concentration of trust roots in a skill's attestation graph — identifying monoculture risk where a single compromised root invalidates an entire chain that appears to have multiple validators.
openclaw
research
bioinformatics
4K
algernon-texto
Block-by-block reading mode for OpenAlgernon materials. Use when the user runs `/algernon texto SLUG`, `/algernon paper SLUG`, says "quero ler [material]", "vamos ler [topic] bloco a bloco", "modo texto", or "leitura guiada". Also activates when the user is mid-session and selects /continue between blocks. Paper mode adds structured reflection between major sections.
openclaw
research
bioinformatics
3.7K
compactness
Problem-solving strategies for compactness in topology
parcadei
research
bioinformatics
3.7K
graph-algorithms
Problem-solving strategies for graph algorithms in graph number theory
parcadei
research
bioinformatics
3.3K
subsystem-summary-of-herder
read this skill for a token-efficient summary of the herder subsystem
stellar
research
bioinformatics
3.1K
ast-grep-codemods
ast-grep NAPI reference and patterns for the packages/codemods project. Use when working with @ast-grep/napi in schema-migration codemods or packages/codemods/ directory, writing AST queries, or debugging tree-sitter node matching.
warp-drive-data
research
bioinformatics
2K
bio-alignment-io
Read, write, and convert multiple sequence alignment files using Biopython Bio.AlignIO. Supports Clustal, PHYLIP, Stockholm, FASTA, Nexus, and other alignment formats for phylogenetics and conservation analysis. Use when reading, writing, or converting alignment file formats.
FreedomIntelligence
research
bioinformatics
2K
bio-alignment-msa-parsing
Parse and analyze multiple sequence alignments using Biopython. Extract sequences, identify conserved regions, analyze gaps, work with annotations, and manipulate alignment data for downstream analysis. Use when parsing or manipulating multiple sequence alignments.
FreedomIntelligence
research
bioinformatics
2K
bio-alignment-pairwise
Perform pairwise sequence alignment using Biopython Bio.Align.PairwiseAligner. Use when comparing two sequences, finding optimal alignments, scoring similarity, and identifying local or global matches between DNA, RNA, or protein sequences.
FreedomIntelligence
research
bioinformatics
2K
bio-basecalling
Convert raw Nanopore signal data (FAST5/POD5) to nucleotide sequences using Dorado basecaller. Covers model selection, GPU acceleration, modified base detection, and quality filtering. Use when processing raw Nanopore data before alignment. Guppy is deprecated; use Dorado for all new analyses.
FreedomIntelligence
research
bioinformatics
2K
bio-causal-genomics-colocalization-analysis
Test whether two traits share a causal variant at a genomic locus using Bayesian colocalization with coloc. Computes posterior probabilities for shared vs distinct causal variants between GWAS and eQTL signals. Use when determining if a GWAS signal and an eQTL share the same causal variant.
FreedomIntelligence
research
bioinformatics
2K
bio-chipseq-peak-annotation
Annotate ChIP-seq peaks to genomic features and genes using ChIPseeker. Assign peaks to promoters, exons, introns, and intergenic regions. Find nearest genes and calculate distance to TSS. Generate annotation plots and statistics. Use when annotating ChIP-seq peaks to genomic features.
FreedomIntelligence
research
bioinformatics
2K
bio-chipseq-peak-calling
ChIP-seq peak calling using MACS3 (or MACS2). Call narrow peaks for transcription factors or broad peaks for histone modifications. Supports input control, fragment size modeling, and various output formats including narrowPeak and broadPeak BED files. Use when calling peaks from ChIP-seq alignments.
FreedomIntelligence
research
bioinformatics
2K
bio-consensus-sequences
Generate consensus FASTA sequences by applying VCF variants to a reference using bcftools consensus. Use when creating sample-specific reference sequences or reconstructing haplotypes.
FreedomIntelligence
research
bioinformatics
2K
bio-copy-number-cnvkit-analysis
Detect copy number variants from targeted/exome sequencing using CNVkit. Supports tumor-normal pairs, tumor-only, and germline CNV calling. Use when detecting CNVs from WES or targeted panel sequencing data.
FreedomIntelligence
research