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Claude Skills by Pavel-Kravchenko
github.com/Pavel-Kravchenko213 skills0 installs219 views
- Advanced String StructuresTries, Aho-Corasick multi-pattern matching, suffix arrays with LCP, and suffix trees for genome indexingVotes: 0GitHub stars: 4
- Ai Science Alphafold Protein DesignAlphaFold2/3 architecture, confidence metrics (pLDDT/PAE), structure fetching, and protein design ranking workflowsVotes: 0GitHub stars: 4
- Ai Science Diffusion Generative ModelsScore matching, noise schedules, DDIM sampling, and DDRM inverse problems for diffusion generative modelsVotes: 0GitHub stars: 4
- Ai Science Enformer RegulatoryEnformer architecture for regulatory prediction from DNA, in-silico mutagenesis (ISM), and variant prioritizationVotes: 0GitHub stars: 4
- Ai Science Epigenomic Sequence ModelsBorzoi vs Epiformer model selection for RNA-seq coverage vs chromatin accessibility predictionVotes: 0GitHub stars: 4
- Ai Science Esm2 EmbeddingsESM2 Embeddings and ESMFold with NumPyVotes: 0GitHub stars: 4
- Ai Science Geneformer ScgptGeneformer and scGPT for Single-Cell ModelingVotes: 0GitHub stars: 4
- Ai Science Genomic LlmsGenomic Foundation Models: Nucleotide Transformers, HyenaDNA, and Evo with NumPyVotes: 0GitHub stars: 4
- Ai Science Llm FinetuningLLM fine-tuning with HuggingFace Transformers — LoRA math, QLoRA 4-bit NF4 quantization, chat templates, SFTTrainer workflow.Votes: 0GitHub stars: 4
- Ai Science Llm Training SystemsModule T5-01B: LLM Training Systems (Tracking, Epochs, and Ablations) with PandasVotes: 0GitHub stars: 4
- Ai Science Splicing ModelsSplicing Models: SpliceAI and AlphaGenome with NumPyVotes: 0GitHub stars: 4
- Ai Science Variant To Structure ModelsFrom DNA Variants to Protein Structure: AlphaFold2, AlphaFold3, RoseTTAFold with NumPyVotes: 0GitHub stars: 4
- Ai Science Vision RagModule T5-02: Vision RAG with NumPyVotes: 0GitHub stars: 4
- Ai Science Zero Shot MutationZero-Shot Mutation Effect Prediction with NumPyVotes: 0GitHub stars: 4
- Algo Aho CorasickMulti-pattern string matching in O(n + m + z) via a trie augmented with KMP-style failure links.Votes: 0GitHub stars: 4
- Algo Avl TreesSelf-balancing BST (Adelson-Velsky & Landis, 1962) guaranteeing O(log n) operations via rotation-based rebalancing.Votes: 0GitHub stars: 4
- Algo Basic AlgorithmsFoundational algorithms — Euclidean GCD, Newton's method for cube root — with complexity analysis and clean implementations.Votes: 0GitHub stars: 4
- Algo Bfs DfsGraph Traversals: BFS and DFS with MatplotlibVotes: 0GitHub stars: 4
- Algo Binary Search TreesBST operations, complexity, and a clean implementation with parent pointers supporting all standard operations.Votes: 0GitHub stars: 4
- Algo Comparison SortsComparison-based sorting algorithms — bubble, merge, shell, quicksort — with complexity tables and implementation patterns.Votes: 0GitHub stars: 4
- Algo Complexity AnalysisBig O notation, complexity classes, space vs time trade-offs, and complexity analysis rules.Votes: 0GitHub stars: 4
- Algo Dfa MatchingDFA-based exact pattern matching: O(m|Σ|) build via prefix function, O(n) search with no backtracking.Votes: 0GitHub stars: 4
- Algo DijkstraDijkstra's Algorithm: Shortest Paths in Weighted GraphsVotes: 0GitHub stars: 4
- Algo Dynamic ArraysDynamic arrays: amortized O(1) append via doubling, O(n) insert/delete, and Python list internals.Votes: 0GitHub stars: 4
- Algo Graph RepresentationsGraph representations — adjacency matrix, adjacency list, edge list — with complexity tables, implementation patterns, and biological network use cases.Votes: 0GitHub stars: 4
- Algo Hash Tables BloomHash tables (chaining vs open addressing) and Bloom filters: complexity, trade-offs, and implementation patterns.Votes: 0GitHub stars: 4
- Algo Intro MemoizationTop-down DP with memoization — cache recursive subproblems for exponential-to-linear speedup, @lru_cache shortcutVotes: 0GitHub stars: 4
- Algo Kmp AlgorithmKMP string matching — O(n+m) pattern search using failure function prefix tableVotes: 0GitHub stars: 4
- Algo KnapsackKnapsack DP variants — 0/1, unbounded, subset sum with traceback and space optimizationVotes: 0GitHub stars: 4
- Algo Linear Binary SearchLinear and binary search — implementations, variants (first/last occurrence), and when to use eachVotes: 0GitHub stars: 4
- Algo Linear SortsCounting sort, radix sort, bucket sort — O(n) non-comparison sorts that bypass the Omega(n log n) lower boundVotes: 0GitHub stars: 4
- Algo Linked ListsSingly linked list — full implementation with head/tail pointers, insert/delete/search/reverse, complexity tableVotes: 0GitHub stars: 4
- Algo Mst Kruskal PrimMinimum spanning trees — Kruskal's (Union-Find, O(E log E)) and Prim's (heap, O((V+E) log V)), MST clusteringVotes: 0GitHub stars: 4
- Algo Naive Pattern MatchingNaive O(nm) brute-force string matching — sliding window baseline, when it's acceptable, motivation for KMP/Rabin-KarpVotes: 0GitHub stars: 4
- Algo Rabin KarpRabin-Karp hash-based string matching — rolling hash for O(n+m) average, excels at multi-pattern searchVotes: 0GitHub stars: 4
- Algo Red Black TreesRed-black tree — self-balancing BST with O(log n) operations, 5 invariants, insert fix-up with rotations and recoloringVotes: 0GitHub stars: 4
- Algo Sequence AlignmentNeedleman-Wunsch global and Smith-Waterman local sequence alignment — DP table fill, traceback, scoring matricesVotes: 0GitHub stars: 4
- Algo Stacks QueuesStack (LIFO) and Queue (FIFO) — array and linked-list implementations, O(1) operations, common applicationsVotes: 0GitHub stars: 4
- Algo Suffix ArraysSuffix arrays — space-efficient sorted suffix index, O(n log n) construction, O(m log n) pattern searchVotes: 0GitHub stars: 4
- Algo Suffix TreesSuffix trees — compressed trie of all suffixes, O(m) pattern search, O(n) construction via Ukkonen's algorithmVotes: 0GitHub stars: 4
- Algo TabulationBottom-up DP with tabulation — edit distance, LCS, space optimization with rolling arraysVotes: 0GitHub stars: 4
- Algo Topological SortTopological sort — DFS and Kahn's BFS algorithms for DAG ordering, cycle detection, critical path analysisVotes: 0GitHub stars: 4
- Algo TriesPrefix tree for O(m) string insert/search and O(p+k) prefix queries; ideal for autocomplete and dictionary membership.Votes: 0GitHub stars: 4
- Alphafold Structure PredictionAlphaFold/ESMFold structure prediction and confidence interpretation.Votes: 0GitHub stars: 4
- Atac Seq AnalysisATAC-seq quality control and accessibility analysis.Votes: 0GitHub stars: 4
- Bio Applied Advanced NgsAdvanced NGS: genome assembly algorithms (OLC, de Bruijn graph), k-mer theory, assembler selection table, and SPAdes/Flye/hifiasm CLI usage.Votes: 0GitHub stars: 4
- Bio Applied Assembly BinningMetagenomic assembly with MEGAHIT, contig binning with MetaBAT2, and MAG quality assessment with CheckM. Includes binning signals, multi-sample strategy, and MIMAG quality tiers.Votes: 0GitHub stars: 4
- Bio Applied Assembly SvLong-Read Assembly Structural Variants with NumPyVotes: 0GitHub stars: 4
- Bio Applied Bayesian Statistics PythonBayesian statistics with PyMC: prior specification, MCMC sampling, posterior analysis, and hierarchical models for biological data. Use when applying Bayesian inference to experiments.Votes: 0GitHub stars: 4
- Bio Applied Bio Data FormatsQuick reference for bioinformatics file formats — FASTA, FASTQ, SAM/BAM/CRAM, VCF, BED, GFF/GTF, BigWig, PDB, Newick — specs, coordinate systems, and parsing patterns.Votes: 0GitHub stars: 4