Which BLAST programs are supported by this skill?

The skill supports blastn, blastp, blastx, tblastn, and tblastx for various DNA and protein search requirements.

What format does the skill use for search results?

The skill returns results in a structured JSON format that includes hit rankings, accession numbers, E-values, bit scores, and identity percentages.

What are the required dependencies for this skill?

You need to install the biopython and typer packages using a package manager like uv or pip.

Can I filter BLAST results by organism?

Yes, you can use the --organism parameter to restrict your search to specific species, such as 'Homo sapiens'.

How should I handle NCBI rate limits?

It is recommended to cache your results to avoid redundant searches and respect NCBI's frequency limits for public API requests.

NCBI BLAST Search

Name: NCBI BLAST Search
Author: dakesan

bydakesan

Data Science & ML

Performs NCBI BLAST sequence similarity searches using BioPython to identify homologous DNA or protein sequences.

About

This skill enables Claude to programmatically execute BLAST (Basic Local Alignment Search Tool) queries directly through BioPython. It supports a wide range of programs including blastn and blastp, allows for organism-specific filtering, and returns results in a structured JSON format. It is designed for researchers and bioinformaticians who need to automate sequence alignment, identify homologs, and retrieve genomic data without leaving their development environment.

Key Features

Integration with BioPython for programmatic sequence analysis
0 GitHub stars
Structured JSON output for easy data parsing and downstream processing
Support for multiple BLAST programs including blastn, blastp, and tblastx
Advanced filtering options by organism and E-value thresholds
Support for both FASTA file inputs and raw sequence strings

Use Cases

Automating sequence alignment tasks within a bioinformatics pipeline
Identifying homologous genes or proteins across different species
Verifying the identity of a DNA sequence against the NCBI database

About

Key Features

Integration with BioPython for programmatic sequence analysis
0 GitHub stars
Structured JSON output for easy data parsing and downstream processing
Support for multiple BLAST programs including blastn, blastp, and tblastx
Advanced filtering options by organism and E-value thresholds
Support for both FASTA file inputs and raw sequence strings

Use Cases

Automating sequence alignment tasks within a bioinformatics pipeline
Identifying homologous genes or proteins across different species
Verifying the identity of a DNA sequence against the NCBI database