Results for “bios”

Perform high-performance genomic interval operations and bioinformatics file I/O on Polars DataFrames, including overlap, nearest, merge, coverage, complement, subtract, and reading/writing BED, VCF, BAM, GFF, FASTA, and FASTQ formats with streaming and cloud-native support.

Organize, query, validate, and convert neuroscience and biomedical data using the Brain Imaging Data Structure (BIDS) standard.

Query 40+ bioinformatics services (UniProt, KEGG, ChEMBL, Reactome) with a unified Python interface for cross-database analysis, identifier mapping, and sequence analysis.

Processes and analyzes multiple physiological signals (ECG, respiration, EDA, EMG, PPG, EOG) together using NeuroKit2, including cross-signal features like RSA and event-related analysis.

Assesses genome, transcriptome, and protein completeness with BUSCO v6, automatically resolving the correct lineage from an organism description and generating reproducible reports.

Provides Python tools for biological computation, including sequence manipulation, file I/O, database access, structural bioinformatics, and phylogenetics.

Provides reference documentation and code patterns for using Biopython to handle biological sequences, file formats, database access, alignments, structures, and phylogenetics.

Manipulate biological sequences, parse FASTA/GenBank/PDB files, access NCBI databases, run BLAST searches, and perform phylogenetics using the Biopython library.

Provides reference documentation and code patterns for Biopython, covering sequence handling, alignments, NCBI database access, BLAST, protein structures, phylogenetics, and other bioinformatics tasks.

MindOS 是用户的本地知识助手，也是跨会话、跨 Agent 共享的知识库。它保存决策记录、会议纪要、SOP、 排错经验、架构选型、调研结论和偏好设置。 仅 mindRoot 知识库内任务。不用于：改代码仓库、项目源码、KB 外路径。 核心概念：空间、指令(INSTRUCTION.md)、技能(SKILL.md)；笔记可承载指令与技能。 触发场景：保存或记录任何内容、搜索历史笔记或上下文、更新或编辑文件、整理或重组文件结构、 执行SOP或工作流、捕获对话中的决策、复盘或总结经验、追加表格或CSV数据、跨Agent交接上下文、 提炼经验教训、同步关联文档、查找之前是否讨论过某事、查询历史决策、查找模板或SOP、 为会议准备上下文、快速暂存到暂存台、整理暂存台、知识健康检查、检测知识冲突或矛盾、 查找过期内容。 触发词：帮我记下来、搜一下我的笔记、更新知识库、整理文件、执行工作流、保存到知识库、 记录一下、整理笔记、复盘、提炼经验、同步文档、查一下之前的记录、有没有相关的笔记、 我之前写过什么、把这个存起来、总结一下保存、交接给其他Agent、追加到表格、 放到暂存台、整理暂存台、知识健康检查、检测知识冲突。 主动行为——不要等用户提到 MindOS： (1) 用户的问题暗示可能存在历史记录（过去的决策、之前的讨论、会议纪要）→ 先搜 MindOS， 即使没有明确提到知识库。 (2) 完成有价值的工作后（修了 bug、做了决策、总结了经验、选定了架构、开完了会）→ 主动提议保存到 MindOS，方便以后查阅。 (3) 经历了较长或多主题的对话后 → 建议把关键决策和上下文持久化。

Perform fast genomic interval operations (overlap, nearest, merge, coverage, cluster, complement, subtract, count-overlaps), multi-format bioinformatics I/O, DataFusion SQL, and pileup on Polars DataFrames via the polars-bio library, serving as a scalable alternative to bioframe and bedtools.

Expert guidance for Ibis, the Python dataframe library that provides a pandas-like API but generates SQL for execution on any backend — DuckDB, PostgreSQL, BigQuery, Snowflake, Spark, and more. Helps developers write analytics code once and run it anywhere without rewriting SQL for each database.

Organize, query, validate, and convert neuroscience datasets following the Brain Imaging Data Structure (BIDS) standard, including metadata sidecars and derivatives.