数据与复现生物信息与基因组学FreedomIntelligence/OpenClaw-Medical-Skills数据与复现

bio-hi-c-analysis-matrix-operations

维护者 FreedomIntelligence · 最近更新 2026年4月1日

Balance, normalize, and transform Hi-C contact matrices using cooler and cooltools. Apply iterative correction (ICE), compute expected values, and generate observed/expected matrices. Use when normalizing or transforming Hi-C matrices.

OpenClawNanoClaw分析处理复现实验bio-hi-c-analysis-matrix-operations🧬 bioinformatics (gptomics bio-* suite)bioinformatics — epigenomics & chromatinbalance

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-matrix-operations

维护者: FreedomIntelligence
许可: MIT
最近更新: 2026年4月1日

技能摘要

来自 SKILL.md 的关键信息

2 min

核心说明

Python：cooler.balance_cooler(clr)，cooltools.expected_cis(clr)。
Normalize my Hi-C contact matrix" → Apply iterative correction (ICE/KR balancing)，compute distance-decay expected values，、 generate observed/expected ratio matrices. Python：cooler.balance_cooler(clr)，cooltools.expected_cis(clr)。
Balance，normalize，、 transform contact matrices。
cooler.balance_cooler('matrix.cool'，store=True，cis_only=True)。

原始文档

SKILL.md 摘录

The balanced weights are stored in the 'weight' column

clr = cooler.Cooler('matrix.cool') weights = clr.bins()['weight'][:] print(f'Balanced weights range: {weights.min():.4f} - {weights.max():.4f}')


## Balance using cooler CLI

cooler balance matrix.cool --cis-only --force

## Check balance status

cooler info matrix.cool | grep "weight"

适用场景

适合在normalizing 或 transforming Hi-C matrices时使用。

不适用场景

Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。

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