pathogen-variant-surveillance
Query live pathogen genomic surveillance data through the GenSpectrum LAPIS API to find which viral lineages are circulating now, how fast they are growing,…
Skills
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Updated 10-28 00:17
Data & analytics
17,077 results
polars-bio
Python library polars-bio for genomic interval operations and bioinformatics file I/O on Polars DataFrames, built on Arrow and DataFusion. Covers overlap,…
pyhealth
Builds clinical deep-learning pipelines with PyHealth using its Dataset → Task → Model → Trainer → Metrics pattern. Covers loading MIMIC-III/IV, eICU, OMOP,…
pyopenms
Complete mass spectrometry analysis platform. Use for proteomics and metabolomics workflows—feature detection, peptide/protein identification, label-free and…
pysam
Python/HTSlib workflows for genomic files. Use when reading, querying, filtering, or writing SAM/BAM/CRAM, VCF/BCF, FASTA/FASTQ, or tabix data with pysam,…
scanpy
Standard single-cell RNA-seq analysis pipeline. Use for QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, differential expression,…
scikit-bio
Python library scikit-bio for biological sequence and community-ecology analysis: DNA/RNA/protein sequences, pair_align alignment, phylogenetic trees (NJ,…
scvi-tools
Trains and applies scvi-tools probabilistic deep generative models (scVI, scANVI, totalVI, MultiVI, PeakVI, DestVI, Solo, CellAssign, MrVI and others) on…
tiledbvcf
Stores and queries genomic variant data in TileDB-VCF datasets using the tiledbvcf Python API and CLI (create, store, export, list, stat). Covers ingesting…
waypoint-bio
Use when working with Outpost Bio's open microbiome foundation models - the Waypoint checkpoints (Waypoint-6m, Waypoint-45m, Waypoint-170m), the Atlas…
dataapp-dev
Expert for developing Streamlit data apps for Keboola deployment. Activates when building, modifying, or debugging Keboola data apps, Streamlit dashboards,…
kafka-shadowtraffic
Generate a ShadowTraffic configuration to populate a Kafka topic with realistic synthetic data. Discovers the target topic, its key and value schemas, and the…
db-wal-recovery
Guidance for recovering data from SQLite Write-Ahead Log (WAL) files that may be corrupted, encrypted, or inaccessible. This skill should be used when tasks…
reshard-c4-data
Guidance for data resharding tasks that involve reorganizing files across directory structures with constraints on file sizes and directory contents. This…
rstan-to-pystan
Guidance for converting R-Stan (RStan) code to Python-Stan (PyStan). This skill applies when translating Stan models and inference code from R to Python,…
sqlite-with-gcov
Guidance for compiling SQLite (or similar C projects) with gcov code coverage instrumentation. This skill should be used when tasks involve building software…
clawshire-data-query
ClawShire Announcement Data Query Skill - Query of extraction results for A-share listed company announcements, supporting retrieval of structured extracted data by date range, securities code, and original announcement link
codat
Codat integration. Manage Companies, Accounts, Bills, Invoices, Payments, Suppliers and more. Use when the user wants to interact with Codat data.
syniverse
Syniverse integration. Manage data, records, and automate workflows. Use when the user wants to interact with Syniverse data.
effect-collections-datastructs
Value-based data structures (Data.struct, tuple, array) and high-performance collections (Chunk, HashSet). Use for safe comparisons and pipelines.
t-sql-correctness
Writes T-SQL that returns the right answer on Azure SQL Database, and catches statements that return a wrong answer with no error: NULL compared using = or <>…
nist-pf-control
Implement the NIST Privacy Framework CONTROL function covering CT.DM data management, CT.DP data processing policies and procedures, and CT.PO disassociated…
nist-pf-identify
Implement the NIST Privacy Framework IDENTIFY function including ID.BE business environment, ID.DA data actions, ID.IM improvement, and ID.RA risk assessment…
nist-pf-protect
Implement the NIST Privacy Framework PROTECT function covering PR.AC access control, PR.DS data security, and PR.PO protective policies. Provides technical…