tmb-msi-calculator

Solid

Tumor mutation burden and microsatellite instability calculation skill for immunotherapy biomarkers

AI & Automation 1,160 stars 71 forks Updated today MIT

Install

View on GitHub

Quality Score: 94/100

Stars 20%
100
Recency 20%
100
Frontmatter 20%
70
Documentation 15%
35
Issue Health 10%
50
License 10%
100
Description 5%
100

Skill Content

# TMB-MSI Calculator Skill ## Purpose Calculate tumor mutation burden and microsatellite instability for immunotherapy biomarker assessment. ## Capabilities - TMB calculation from VCF - MSI status determination - Neoantigen prediction - HLA typing integration - Biomarker thresholds - Clinical report generation ## Usage Guidelines - Calculate TMB with appropriate normalization - Determine MSI status accurately - Predict neoantigens for immunotherapy - Apply clinical thresholds for reporting - Generate actionable reports - Document methodology and thresholds ## Dependencies - TMBcat - MSIsensor2 - MANTIS ## Process Integration - Tumor Molecular Profiling (tumor-molecular-profiling)

Details

Author
a5c-ai
Repository
a5c-ai/babysitter
Created
4 months ago
Last Updated
today
Language
JavaScript
License
MIT

Similar Skills

Semantically similar based on skill content — not just same category

AI & Automation Listed

tnm-stage-calculator

Fast TNM stage group calculation from pT, pN, pM categories using AJCC 8th edition criteria, with automatic consistency validation. Use when the user asks "what stage is pT2 N1 M0", "calculate TNM stage", "stage group for pT3 N1b breast", "is pT2 N0 M0 stage I or II", "stage this pancreatic cancer", or any pT/pN/pM to stage-group conversion. Supports breast, colorectal, pancreas, and gastric carcinoma. Flags inconsistencies like tumor-size-vs-pT mismatches and node-count-vs-pN mismatches.

0 Updated today
sbalci
AI & Automation Listed

tnm-stage-calculator

Fast TNM stage group calculation from pT, pN, pM categories using AJCC 8th edition criteria, with automatic consistency validation. Use when the user asks "what stage is pT2 N1 M0", "calculate TNM stage", "stage group for pT3 N1b breast", "is pT2 N0 M0 stage I or II", "stage this pancreatic cancer", or any pT/pN/pM to stage-group conversion. Supports breast, colorectal, pancreas, and gastric carcinoma. Flags inconsistencies like tumor-size-vs-pT mismatches and node-count-vs-pN mismatches.

0 Updated today
patolojiAI
Testing & QA Listed

colorectal-pathology-specialist

Comprehensive colorectal cancer pathology workflow combining CAP/ICCR compliance validation, synoptic template generation, TNM staging (AJCC 8th edition), MSI/MMR testing interpretation, mesorectal excision quality (MERCURY) grading, tumor board summaries, and SNOMED coding. Use when the user uploads or pastes a colorectal pathology report (colectomy, low anterior resection, abdominoperineal resection, polypectomy) and asks to "check colorectal report", "validate CAP ColoRectal protocol", "stage this colorectal cancer", "interpret MSI/MMR", "assess TME quality", or any colorectal-cancer-specific pathology task. Supports .pdf, .docx, .txt input in English and Turkish.

0 Updated today
patolojiAI
Testing & QA Listed

colorectal-pathology-specialist

Comprehensive colorectal cancer pathology workflow combining CAP/ICCR compliance validation, synoptic template generation, TNM staging (AJCC 8th edition), MSI/MMR testing interpretation, mesorectal excision quality (MERCURY) grading, tumor board summaries, and SNOMED coding. Use when the user uploads or pastes a colorectal pathology report (colectomy, low anterior resection, abdominoperineal resection, polypectomy) and asks to "check colorectal report", "validate CAP ColoRectal protocol", "stage this colorectal cancer", "interpret MSI/MMR", "assess TME quality", or any colorectal-cancer-specific pathology task. Supports .pdf, .docx, .txt input in English and Turkish.

0 Updated today
sbalci
AI & Automation Solid

mageck-crispr-analyzer

MAGeCK CRISPR screen analysis skill for gene essentiality scoring

1,160 Updated today
a5c-ai