omicverse/dsh-omicos

README excerpt

@omicverse/dsh-omicos Run OmicVerse/OmicOS bioinformatics analyses from inside DeepSeek Harness. The dsh agent keeps the wheel; this plugin gives it a persistent Python kernel (scanpy / omicverse / R) plus the catalog of analysis skills that OmicOS ships. 中文简介：把 OmicOS 的生信分析能力接进 dsh。DeepSeek 负责对话与规划， OmicOS 负责跑分析——持久 Python 内核， adata 等状态跨轮累积； 另带账号/订阅标签页与实时执行过程可视化。 Tools One tool runs an analysis; the rest are direct reads of the local kernel that cost neither a turn nor a token. Tool What it does omicos analyze Runs a full OmicOS turn in a persistent kernel bound to the workspace. Repeated calls in one dsh session land on the same OmicOS conversation, so state accumulates. background: true hands it to ctx.jobs with live tqdm progress. omicos capabilities Searches the installed skill/agent catalog (269 skills + 97 agents on a full install) and returns a ranked, bounded projection. Use it to decide whether a task is worth delegating. Omit the query for a category overview. omicos list variables What currently lives in the kernel — name, type, shape, size. omicos query variable One variable in detail. For an AnnData this includes the preprocessing state ( is int / is normalized / is l…

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