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FreedomIntelligence/OpenClaw-Medical-SkillsView
Data & Repro
BI
bio-sequence-similarity
Maintainer FreedomIntelligence · Last updated April 1, 2026
Compute sequence similarity with pairwise alignment and percent identity.
Original source
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-sequence-similarity
- Maintainer
- FreedomIntelligence
- License
- MIT
- Last updated
- April 1, 2026
Skill Snapshot
Key Details From SKILL.md
Key Notes
- Advanced methods for finding homologous sequences beyond standard BLAST.
- Builds a position-specific scoring matrix (PSSM) through iterations to find distant homologs.
Source Doc
Excerpt From SKILL.md
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) |
Use cases
- Use bio-sequence-similarity for genomics and bioinformatics workflows.
- Apply bio-sequence-similarity to sequencing, variant, or omics analysis tasks.
Not for
- Do not rely on this catalog entry alone for installation or maintenance details.
Upstream Related Skills
- blast-searches - Basic remote BLAST
- local-blast - Local BLAST databases
- entrez-fetch - Download sequences
- alignment - Align identified homologs
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