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Research & Science · By jaechang-hits

143 skills found, page 2.
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49
49.Trackpy Particle Tracking

Python library for single-particle tracking (SPT) in video microscopy via the Crocker-Grier algorithm.

jaechang-hits/SciAgent-Skills3741 repo~6.6kAutomated safety check: PassBSD-3-Clause12 days ago
50
50.Ucsc Genome Browser

Query UCSC Genome Browser REST API for DNA sequences, tracks, gene models, and conservation across 100+ assemblies.

jaechang-hits/SciAgent-Skills3741 repo~6kAutomated safety check: PassApache-2.012 days ago
51
51.Viennarna Structure Prediction

Predict RNA secondary structure, MFE folding, base-pair probabilities, RNA-RNA interactions via ViennaRNA Python bindings.

jaechang-hits/SciAgent-Skills3741 repo~5.4kAutomated safety check: PassMIT12 days ago
52
52.Adaptyv Bio

API + Python SDK for ordering cell-free protein expression and binding assays.

jaechang-hits/SciAgent-Skills3741 repo~4.7kAutomated safety check: PassMIT12 days ago
53
53.Astropy Astronomy

Core Python library for astronomy/astrophysics: units with dimensional analysis, celestial coordinate transforms (ICRS/Galactic/AltAz/FK5), FITS I/O, tables (FITS/HDF5/VOTable/CSV), cosmology…

jaechang-hits/SciAgent-Skills3741 repo~5.5kAutomated safety check: PassBSD-3-Clause12 days ago
54
54.Bcftools Variant Manipulation

CLI for VCF/BCF: filter, merge, annotate, query, normalize, compute stats.

jaechang-hits/SciAgent-Skills3741 repo~4.8kAutomated safety check: PassMIT12 days ago
55
55.Bedtools Genomic Intervals

Genomic interval ops on BED/BAM/GFF/VCF. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.3kAutomated safety check: PassGPL-2.012 days ago
56
56.Biorxiv Database

Query bioRxiv/medRxiv preprints via REST API. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~5.1kAutomated safety check: PassCC0-1.012 days ago
57
57.Bioservices Multi Database

Unified Python interface to 40+ bioinformatics web services: UniProt proteins, KEGG pathways, ChEMBL/ChEBI/PubChem, BLAST, cross-database ID mapping, GO annotations, PPI.

jaechang-hits/SciAgent-Skills3741 repo~6.1kAutomated safety check: PassUnknown12 days ago
58
58.Brenda Database

BRENDA Enzyme DB SOAP/REST queries: kinetic parameters (Km, Vmax, kcat, Ki), EC classes, substrate specificity, inhibitors, cofactors, organism data.

jaechang-hits/SciAgent-Skills3741 repo~4.6kAutomated safety check: PassCC-BY-4.012 days ago
59
59.Bwa Mem2 Dna Aligner

Fast short-read DNA aligner for WGS/WES/ChIP-seq. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.5kAutomated safety check: PassMIT12 days ago
60
60.Cancer Research Figure Guide

Cancer Research (AACR) figures: resolution (300-1200 DPI), formats (EPS/TIFF/AI), hierarchical panel labels (Ai, Aii, Bi), figure/table limits, legend requirements with replicate counts.

jaechang-hits/SciAgent-Skills3741 repo~2.8kAutomated safety check: PassCC-BY-4.012 days ago
61
61.Cell Figure Guide

Cell (Cell Press) figure preparation: resolution (300-1000 DPI), formats (TIFF/PDF), RGB color, Avenir/Arial fonts, uppercase panel labels, strict image manipulation policies.

jaechang-hits/SciAgent-Skills3741 repo~3.6kAutomated safety check: PassCC-BY-4.012 days ago
62
62.Cellpose Cell Segmentation

DL cell/nucleus segmentation for fluorescence and brightfield microscopy.

jaechang-hits/SciAgent-Skills3741 repo~3.5kAutomated safety check: PassBSD-3-Clause12 days ago
63
63.Clinicaltrials Database Search

Query ClinicalTrials.gov API v2 for trial data. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.6kAutomated safety check: PassCC-BY-4.012 days ago
64
64.Clinvar Database

Query NCBI ClinVar via E-utilities for variant clinical significance, pathogenicity, disease associations.

jaechang-hits/SciAgent-Skills3741 repo~4.9kAutomated safety check: PassCC0-1.012 days ago
65
65.Cosmic Database

Query COSMIC for cancer somatic mutations, gene census, mutational signatures, drug resistance variants.

jaechang-hits/SciAgent-Skills3741 repo~4.6kAutomated safety check: PassCC-BY-NC-SA-4.012 days ago
66
66.Datamol Cheminformatics

Pythonic RDKit wrapper with sensible defaults for drug discovery.

jaechang-hits/SciAgent-Skills3741 repo~4.4kAutomated safety check: PassApache-2.012 days ago
67
67.Deeptools Ngs Analysis

NGS CLI for ChIP/RNA/ATAC-seq. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.1kAutomated safety check: PassBSD-3-Clause12 days ago
68
68.Depmap Crispr Essentiality

DepMap CRISPR gene effect (Chronos) analysis: sign convention for essentiality, per-gene NaN-safe Spearman correlation, data loading/alignment.

jaechang-hits/SciAgent-Skills3741 repo~3.7kAutomated safety check: PassCC-BY-4.012 days ago
69
69.Drugbank Database Access

Parse local DrugBank XML for drug info, interactions, targets, and properties.

jaechang-hits/SciAgent-Skills3741 repo~5.8kAutomated safety check: PassUnknown12 days ago
70
70.Emdb Database

Look up EMDB cryo-EM density maps and fitted atomic models via the entry REST API + EBI Search WS.

jaechang-hits/SciAgent-Skills3741 repo~4.9kAutomated safety check: PassCC-BY-4.012 days ago
71
71.Ensembl Database

Ensembl REST API for gene/transcript/variant annotations in 300+ species.

jaechang-hits/SciAgent-Skills3741 repo~4kAutomated safety check: PassApache-2.012 days ago
72
72.Esm Protein Language Model

Protein language models (ESM3, ESM C) for sequence generation, structure prediction, inverse folding, and embeddings.

jaechang-hits/SciAgent-Skills3741 repo~4kAutomated safety check: PassMIT12 days ago
73
73.Fastp Fastq Preprocessing

All-in-one FASTQ QC and adapter trimming. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.1kAutomated safety check: PassMIT12 days ago
74
74.Fda Database

Query openFDA REST API for adverse events (FAERS), labeling, product info, recalls, enforcement.

jaechang-hits/SciAgent-Skills3741 repo~4.5kAutomated safety check: PassCC0-1.012 days ago
75
75.Featurecounts Rna Counting

Counts RNA-seq reads overlapping GTF gene features. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.7kAutomated safety check: NotesGPL-3.012 days ago
76
76.Gatk Variant Calling

GATK Best Practices for germline SNP/indel calling from WGS/WES BAMs.

jaechang-hits/SciAgent-Skills3741 repo~3.7kAutomated safety check: PassBSD-3-Clause12 days ago
77
77.General Figure Guide

Universal QA checklist for generated scientific plots: overlapping labels, clipped text, missing axes/legends, overcrowded data, and cross-journal resolution/format guidance.

jaechang-hits/SciAgent-Skills3741 repo~1.8kAutomated safety check: PassCC-BY-4.012 days ago
78
78.Gseapy Gene Enrichment

GSEA and over-representation analysis (ORA) for RNA-seq and proteomics.

jaechang-hits/SciAgent-Skills3741 repo~4.1kAutomated safety check: PassMIT12 days ago
79
79.Gtopdb Database

Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.

jaechang-hits/SciAgent-Skills3741 repo~4.9kAutomated safety check: PassUnknown12 days ago
80
80.Gwas Database

NHGRI-EBI GWAS Catalog REST API for SNP-trait associations from published GWAS.

jaechang-hits/SciAgent-Skills3741 repo~6.6kAutomated safety check: PassApache-2.012 days ago
81
81.Histolab Wsi Processing

WSI processing for digital pathology. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~5.8kAutomated safety check: NotesApache-2.012 days ago
82
82.Hypogenic Hypothesis Generation

LLM-driven hypothesis generation/testing on tabular data. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.9kAutomated safety check: PassMIT12 days ago
83
83.Kegg Database

KEGG REST API (academic only). An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.6kAutomated safety check: PassUnknown12 days ago
84
84.Kegg Pathway Analysis

Guide to KEGG pathway enrichment for DEG results. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~4.8kAutomated safety check: PassCC-BY-4.012 days ago
85
85.Macs3 Peak Calling

Poisson-model peak caller for ChIP-seq/ATAC-seq BAMs. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.5kAutomated safety check: PassBSD-3-Clause12 days ago
86
86.Matchms Spectral Matching

MS spectral matching and metabolite ID with matchms. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~6.3kAutomated safety check: PassApache-2.012 days ago
87
87.Multiqc Qc Reports

Aggregates QC from 150+ bioinformatics tools into one interactive HTML report.

jaechang-hits/SciAgent-Skills3741 repo~2.9kAutomated safety check: PassGPL-3.012 days ago
88
88.Napari Image Viewer

Interactive viewer for microscopy. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.3kAutomated safety check: PassBSD-3-Clause12 days ago
89
89.Openalex Database

Query OpenAlex REST API for 250M+ scholarly works, authors, institutions, journals, concepts.

jaechang-hits/SciAgent-Skills3741 repo~4.8kAutomated safety check: PassCC0-1.012 days ago
90
90.Peer Review Methodology

Structured peer review of manuscripts and grants. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~2.9kAutomated safety check: PassCC-BY-4.012 days ago
91
91.Plink2 Gwas Analysis

GWAS and population genetics tool. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills3741 repo~3.5kAutomated safety check: PassGPL-3.012 days ago
92
92.Protocolsio Integration

protocols.io REST API: search and fetch wet-lab, bioinformatics, and clinical protocols by keyword, DOI, or category, with steps, reagents, materials, equipment, timing.

jaechang-hits/SciAgent-Skills3741 repo~4.3kAutomated safety check: PassCC-BY-4.012 days ago
93
93.Pydicom Medical Imaging

Pure Python DICOM for medical imaging (CT, MRI, X-ray, ultrasound).

jaechang-hits/SciAgent-Skills3741 repo~7.5kAutomated safety check: PassMIT12 days ago
94
94.Pylabrobot

Hardware-agnostic Python liquid-handler library: portable scripts run on Hamilton STAR, Tecan Freedom EVO, Opentrons OT-2, or a simulator without vendor lock-in.

jaechang-hits/SciAgent-Skills3741 repo~4kAutomated safety check: PassMIT12 days ago
95
95.Pymoo

Python framework for single- and multi-objective optimization with evolutionary algorithms.

jaechang-hits/SciAgent-Skills3741 repo~4.9kAutomated safety check: PassApache-2.012 days ago
96
96.Pyopenms Mass Spectrometry

MS data processing with PyOpenMS for LC-MS/MS proteomics and metabolomics — mzML/mzXML I/O, signal processing (smoothing, peak picking, centroiding), feature detection/linking, peptide/protein ID…

jaechang-hits/SciAgent-Skills3741 repo~5.9kAutomated safety check: PassBSD-3-Clause12 days ago

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