smarts_list_files
ChatGPTList files and folders in a workspace directory.
Productivity
Overview
smarts.bio brings a real bioinformatics platform into ChatGPT. Describe your analysis in plain English and run actual tools and pipelines on your own data — no scripting or setup required. What you can do: Run sequence searches and analyses — BLAST, GC content, ORFs, domains, and more across DNA, RNA, and protein Call and annotate variants, align reads (WES, RNA-seq), and run quality-control and other multi-step pipelines Upload and manage workspace files, then open results — FASTA, BAM, VCF, PDB, CSV — in interactive viewers Search genes, literature, and patents alongside your analysis Who it's for: biologists, bioinformaticians, computational biologists, and researchers who'd rather describe an analysis than wire up the tooling. Connect your smarts.bio account to get started. Long-running jobs keep working in the background, and your files stay in your own workspace.
Tools
smarts_list_files
ChatGPTList files and folders in a workspace directory.
smarts_list_pipelines
ChatGPTList available multi-step pipeline definitions (QC, alignment, RNA-seq, variant calling, …).
smarts_list_pipelines
ChatGPTList available multi-step pipeline definitions (QC, alignment, RNA-seq, variant calling, …).
smarts_list_tools
ChatGPTList available bioinformatics tools (BLAST, GATK, NCBI lookups, …), optionally filtered by category.
smarts_list_tools
ChatGPTList available bioinformatics tools (BLAST, GATK, NCBI lookups, …), optionally filtered by category.
smarts_list_workspaces
ChatGPTList the workspaces the authenticated user can access.
smarts_list_workspaces
ChatGPTList the workspaces the authenticated user can access.
smarts_open_file
ChatGPTGet a shareable browser viewer URL for a workspace file (FASTA, BAM, VCF, PDB, CSV, …).
smarts_open_file
ChatGPTGet a shareable browser viewer URL for a workspace file (FASTA, BAM, VCF, PDB, CSV, …).
smarts_query
ChatGPTAsk the smarts.bio bioinformatics agent a question. It can search biological databases, run tools, design pipelines, and reason over results. Use this for most open-ended bioinformatics tasks; returns the agent's answer.
smarts_query
ChatGPTAsk the smarts.bio bioinformatics agent a question. It can search biological databases, run tools, design pipelines, and reason over results. Use this for most open-ended bioinformatics tasks; returns the agent's answer.
smarts_read_file
ChatGPTRead the contents of a workspace file by its storage key (text; truncated if large).
smarts_read_file
ChatGPTRead the contents of a workspace file by its storage key (text; truncated if large).
smarts_run_pipeline
ChatGPTStart a pipeline run. Returns a run id; poll it with smarts_run_status.
smarts_run_pipeline
ChatGPTStart a pipeline run. Returns a run id; poll it with smarts_run_status.
smarts_run_status
ChatGPTGet the status of a pipeline run by id.
smarts_run_status
ChatGPTGet the status of a pipeline run by id.
smarts_run_tool
ChatGPTRun a single bioinformatics tool directly with the given input. Use smarts_list_tools to find tool ids and parameters.
smarts_run_tool
ChatGPTRun a single bioinformatics tool directly with the given input. Use smarts_list_tools to find tool ids and parameters.
Capabilities
Writes
