Microbiologist: the all-in-one AI plugin for your lab work

Skills for microbiologists 17

• culture protocol assistantBuilds step-by-step culture protocols and media recipes, and traces contamination. Example: a Listeria enrichment that keeps failing at the secondary broth.
• pathogen identification assistantSupports identification workflows, genetic data review, QC, and reporting. Example: confirming a Salmonella isolate from MALDI-TOF plus 16S results.
• microbial genetics research assistantHelps with CRISPR design, resistance and evolution studies, statistics, and manuscripts. Example: planning a knockout to test a beta-lactamase gene.
• literature review assistantRuns search, citation formatting, synthesis, and gap analysis. Example: pulling 40 papers on biofilm persistence in catheters into one table.
• academic research synthesizerBuilds cited reviews with a confidence tag per claim. Example: hand hygiene studies labeled strong, moderate, or weak.
• laboratory protocol optimizerImproves SOPs, QC, calibration, and cost comparisons. Example: cutting a 5-day identification workflow to 3 days without losing accuracy.

Plus a start-here assistant, the prompt library and the app builder, and for members the daily brief.

Ready-made prompts 270

• Microbial Genome Analysis19 prompts, like Gene Prediction Pipeline
• Antibiotic Resistance Studies20 prompts, like Streamline Antibiotic Resistance Literature Review
• Pathogen Identification19 prompts, like Automated Pathogen Identification System
• Environmental Microbial Sampling19 prompts, like Analyze Bioaerosol Sampling Data
• Fermentation Process Optimization22 prompts, like Fermentation Data Analysis and Trend Identification
• Microbial Ecology Analysis10 prompts, like Analyze Microbial Community Structure
• Clinical Trial Data Analysis5 prompts, like Analyze Clinical Trial Statistics

Apps you can build with AI 4

• Reviewed research evidence and writing workspaceBuild this to keep every claim tied to a source while you draft reviews, SOPs, and reports. Demo included.
• Evidence-backed research and reporting workspaceBuild this to move from a lab question to a cited, reviewable report in one owned workspace. Demo included.
• Specialist literature monitoringBuild this to track one narrow topic, such as carbapenem resistance in wastewater, with visible inclusion decisions. Demo included.
• Research data cleaningBuild this to clean plate counts, MIC tables, and sequence metadata with reversible, documented rules. Demo included.

AI agents 12

In the download. An agent runs a whole recurring task for you, step by step, and asks you before anything important. Ask your AI: "Run the Research Data Intake Validation Agent". Each one also has a guided set-up with sample data on its page.

• Research Data Intake Validation AgentA validated, reproducible working dataset with raw data untouched.
• Biohazard Waste Reconciliation AgentProduce a reconciled record in which every container logged is accounted for at pickup.
• Culture Contamination Investigation AgentFind the most likely contamination source and confirm it with tests.
• Growth Curve Fitting AgentProduce growth parameters from every curve using the same documented fitting rules.
• Sterilization Cycle Verification AgentMake sure every item leaving the autoclave went through a verified cycle.
• Metagenome Classification Review AgentProduce a taxonomy table where disputed calls have been tested against an independent reference.
• Isolate Relatedness AgentGive the scientist stable, evidence-backed clusters and a note on which links are uncertain.
• Blot and Gel Quantification Check AgentConsistent normalized band values in which every lane passes quality checks or is flagged with a reason.
• Sequencing Result Review AgentEach clone is classified as correct, usable with a note or failed, with a next step for every failure.
• Grant Aim Progress Check AgentEvery funded aim has recent evidence of progress, and gaps become concrete experiments before a report is due.
• Environmental Swab Trend AgentPatterns in environmental results are found and resolved early, not after a product positive.
• Plate Assay QC AgentOnly plates that pass QC go into analysis

Connections (MCP servers) 12

A guide in the download. A connection lets your AI work in an app you already use. You add only the ones you use: ask your AI "Which apps can you connect to?" and follow the steps on each connection's page.

• NCBI PubMed MCP serverSearch PubMed's millions of research articles and get summaries, authors, and related papers through your AI.
• Scholar MCP serverYour AI can search academic papers, read them, map citations, and save them into a personal library.
• PubMed MCP serverLets your AI search medical and life sciences papers on PubMed and read their abstracts and full text.
• Google Scholar MCP serverLets your AI search Google Scholar and pull ready-made citations for papers you find. No install needed.
• Mendeley MCP serverLets your AI search your Mendeley library, read your papers, and organize your folders for you.
• Research Hub MCP serverLets your AI search for papers, save them to Zotero, and write notes into your Obsidian vault for you.
• Research Data Finder MCP serverSearch and download research datasets and papers from many archives, all through one request to your AI.
• Noodle Biomedical Literature MCP serverLets your AI search biomedical papers and follow their citation and topic links. No install needed.
• arXiv MCP serverLets your AI search arXiv for research papers and pull up their details and full text. No install needed.
• Semantic Scholar MCP serverSearch 200M+ academic papers, follow citations, and get author details right inside your AI chat.
• Zotero MCP server (Zoteus)Lets your AI search your Zotero library, pull PDF passages with page numbers, and format citations. No install needed.
• Web Researcher MCP serverLets your AI search trusted sites, read full articles, and give you real, clickable sources.

Your Grok Bot team 10

• PylabrobotControls lab robots and equipment from Python scripts.
• Opentrons IntegrationWrites Opentrons Protocol API v2 Python scripts for Flex/OT-2 liquid handling workflows.
• Omero IntegrationManage microscopy images and metadata via OMERO Python API.
• Labarchive IntegrationAutomate LabArchives electronic lab notebook operations via API.
• PathmlAnalyze whole-slide pathology images and multiparametric imaging data.
• Clinvar DatabaseQuery ClinVar for variant clinical significance and pathogenicity classifications. No hype, no emoji, no 'leverage'/'empower'/'seamless'.
• Academic ResearcherSearches scholarly databases, analyzes papers, and writes structured findings to a markdown file.
• Research GrantsWrites competitive research proposals for NSF, NIH, DOE, and DARPA with agency-specific formatting and review criteria.
• Antibiotic Resistance Research AssistantSupports microbiologists in antibiotic resistance research from literature to publication.
• Microbial Genome Analysis AssistantMicrobial genome analysis assistant for assembly, annotation, comparison, and insight generation.