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Claude Skills by Pavel-Kravchenko
github.com/Pavel-Kravchenko213 skills0 installs219 views
- Python Core BioCore Python for bioinformatics — types, bio-string manipulation (codons, reverse complement), functions, and file I/O for FASTA/GenBankVotes: 0GitHub stars: 4
- Rnaseq AnalysisRNA-seq differential expression analysis and normalization workflows.Votes: 0GitHub stars: 4
- RnaseqRNA-seq differential expression — DESeq2, edgeR, normalization strategies (RPKM/TPM/DESeq2 size factors), exploratory PCA, volcano plots, GSEA, STAR/Salmon/featureCounts pipelinesVotes: 0GitHub stars: 4
- Scrna Seq AnalysisSingle-cell RNA-seq analysis from count matrix to annotated cell types and trajectories.Votes: 0GitHub stars: 4
- String AlgorithmsPattern matching algorithms — naive, KMP (failure function), Rabin-Karp (rolling hash), and DFA-based matching for sequence searchVotes: 0GitHub stars: 4
- Structural BioinformaticsBio.PDB parsing, distance/RMSD/TM-score, DSSP, Ramachandran, PWM/PROSITE, GO enrichment, KEGG REST API.Votes: 0GitHub stars: 4
- Virology BioinformaticsViral genome assembly, intra-host variant calling, phylodynamics, and real-time surveillance.Votes: 0GitHub stars: 4
- Vision Language ModelsVision-language model inference patterns for scientific documents.Votes: 0GitHub stars: 4
- Bio Applied Coverage TracksGenerate normalized bigWig coverage tracks from BAM with deepTools bamCoverage/bamCompare (RPKM/CPM/RPGC), summarize with multiBamSummary, and plot TSS/region signal with computeMatrix + plotHeatmap/plotProfile; pyBigWig for programmatic access. Use when normalizing BAM to bigWig, computing ChIP/input log2 ratio tracks, making TSS metagene heatmaps, or querying bigWig values in Python.Votes: 0GitHub stars: 4
- Bio Applied Flow CytometryRead FCS 2.0/3.0/3.1 files with FlowKit/flowio, apply spillover compensation, logicle/arcsinh transforms, build gating hierarchies, and compute population statistics. Use when analyzing flow cytometry data, .fcs files, panels, compensation matrices, or gating trees.Votes: 0GitHub stars: 4
- Bio Applied Primer DesignDesign PCR/qPCR primers with primer3-py design_primers/calc_hairpin, Bio.SeqUtils Tm, and blastn specificity checks. Use when designing PCR, qPCR, cloning, or genotyping primers, or checking Tm/dimers/specificity.Votes: 0GitHub stars: 4
- Bio Applied Ribo SeqRibo-seq: cutadapt/bowtie2 adapter+rRNA removal, plastid P-site calibration, 3-nt periodicity QC, RiboCode/ribotricer ORF calling, translation efficiency. Use when user has ribosome profiling or footprint data.Votes: 0GitHub stars: 4
- Bio Applied Variant AnnotationAnnotate a VCF's consequence/HGVS/impact with Ensembl VEP or snpEff, then join gnomAD AF, ClinVar, and dbNSFP scores. Use when annotating a VCF, running VEP/snpEff, or parsing CSQ/ANN fields.Votes: 0GitHub stars: 4