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bio-sequence-similarity
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Compute sequence similarity with pairwise alignment and percent identity.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-sequence-similarity
- 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
核心说明
- Advanced methods ，用于 finding homologous sequences beyond standard BLAST。
- 构建 position-specific scoring matrix (PSSM) through iterations to find distant homologs。
原始文档
SKILL.md 摘录
PSI-BLAST Parameters
| Parameter | Default | Description |
|---|---|---|
| -num_iterations | 1 | Number of iterations |
| -inclusion_ethresh | 0.002 | E-value for PSSM inclusion |
| -evalue | 10 | E-value threshold for reporting |
| -num_threads | 1 | CPU threads |
HMMER for Profile Searches
HMMER uses profile hidden Markov models for sensitive sequence searches.
HMMER Output Columns (--tblout)
| Column | Description |
|---|---|
| 1 | Target name |
| 2 | Accession |
| 3 | Query name |
| 4 | Query accession |
| 5 | E-value (full sequence) |
| 6 | Score (full sequence) |
| 7 | Bias |
| 8 | E-value (best domain) |
| 9 | Score (best domain) |
适用场景
- Use bio-sequence-similarity ，用于 genomics 、 bioinformatics workflows。
- Apply bio-sequence-similarity to sequencing，variant，或 omics analysis tasks。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
上游相关技能
- blast-searches - Basic remote BLAST
- local-blast - Local BLAST databases
- entrez-fetch - Download sequences
- alignment - Align identified homologs
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