skills.rest
MubasherMohammed
MubasherMohammedCOMMUNITY
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flow-bio

Automates authentication, browsing, uploading, and executing pipelines on the Flow.bio platform via REST API requests.

Updated May 10, 2026
Search Tags:#bioinformatics#pipelines#Nextflow#execution tracking#flow.bio
One-click install
npx skills add https://github.com/MubasherMohammed/opencode-BioInfo --skill flow-bio
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: flow-bio
Source: https://github.com/MubasherMohammed/opencode-BioInfo/tree/main/python/skills/flow-bio
Command: npx skills add https://github.com/MubasherMohammed/opencode-BioInfo --skill flow-bio

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, and includes scripts (resource) components.

What problem does it solve?

This Skill streamlines interaction with the Flow.bio platform, allowing users to authenticate, browse, upload, and execute bioinformatics pipelines without navigating the web UI.

Core Features & Use Cases

  • Authentication: Login with credentials or tokens.
  • Pipeline Discovery: List and inspect available Nextflow pipelines.
  • Sample Management: List, search, and upload samples.
  • Project Browsing: List owned/shared projects and their contents.
  • Execution Tracking: Launch pipeline runs, poll status, and retrieve logs.
  • Search: Full-text search across samples, projects, data, and executions.
  • Data Listing: Browse owned and shared data files.
  • Organism & Type Discovery: List available organisms and sample types for uploads.
  • Overview Mode: Live overview of any Flow instance.
  • Use Case: A researcher can quickly launch a Nextflow pipeline on Flow, upload samples, and monitor the execution status from the command line, enabling a seamless integration with their local analysis workflow.

Quick Start

Use the flow-bio skill to list all available pipelines on Flow.

Frequently Asked Questions about flow-bio

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I automate Nextflow pipeline execution tracking from the command line?▼

You can automate execution tracking by authenticating with the Flow.bio API to launch pipeline runs, poll their status, and retrieve logs directly without using the web UI.

Can I manage and upload bioinformatics samples through an API?▼

Yes, you can list, search, and upload bioinformatics samples programmatically by authenticating with the Flow.bio RESTful API to integrate sample management into your local workflow.

What do I need to interact with the Flow.bio API programmatically?▼

To interact with the Flow.bio API programmatically, you need the requests library to handle RESTful API calls, along with your Flow.bio login credentials or authentication tokens.

How do I discover available Nextflow pipelines and organisms for bioinformatics workflows?▼

You can discover available Nextflow pipelines, list supported organisms, and identify sample types by querying the Flow.bio API to browse platform contents and resources.

Is full-text search across bioinformatics projects and executions supported?▼

Yes, full-text search across bioinformatics samples, projects, data files, and executions is supported natively through the Flow.bio API integration.

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