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Transcriptional variant verification to validate predicted variants from genomic data in expressed transcripts

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Name		Name	Last commit message	Last commit date
Latest commit History 119 Commits
.idea		.idea
Reading		Reading
data		data
notebook		notebook
script		script
.gitignore		.gitignore
Dockerfile		Dockerfile
README.md		README.md
requirements.txt		requirements.txt
varify.py		varify.py

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NYU Bioinformatics Capstone Project: VARify

Contents

Notebook: notebook/varify_notebook.ipynb
Test Data: data/test/
Report Script: script/main.py
Utility File: script/utility.py

How to use

--in_pileup mpileup file in txt format
--in_snpeff snpeff-like table in txt format

python3 '../script/main.py' --in_pileup <mpileup_file> --in_snpeff <snpefftable_file>

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Transcriptional variant verification to validate predicted variants from genomic data in expressed transcripts

rna-seq wgs wes variant-effect-prediction

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