README.md

MAnTa

Manual Annotation of Tapestri DNA-seq data

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Setup

Installation

Requirements

• Python 3.X
• Python packages (listed in requirements.txt)

Optional: create and source conda environment

conda create --name manta python=3
conda activate manta

Install packages from requirements.txt file, e.g., via pip:

python -m pip install -r requirements.txt

Data

Required files per sample stored in one input folder:

• {PREFIX}.barcode.cell.distribution.merged.tsv file from dna/results/tsv/ directory
• {PREFIX}.filtered_variants.csv file from mosaic_preprocessing.py)

Additionally required somewhere else:

• Annotated Tapestri panel in bed format (annotation tool)

Running

Run the app

python run_app.py -i <DATA_DIR> -p <PANEL_file>

Open webrowser and go to: http://127.0.0.1:8050/