dissectBCL

Demultiplexing pipeline for illumina data (novaseq/miseq/nextseq). Continuation of Devon Ryan's TWTWTWTW.

Installation.

Clone this repository, create the environment and pip install

git clone git@github.com:maxplanck-ie/dissectBCL.git
cd dissectBCL
conda create -f env.yml --name dissectBCL
conda activate dissectBCL
pip install ./

Fill in the dissectBCL.ini file appropriately. By default the config file is expected to be in ~/configs/dissectBCL_prod.ini.

Running.

dissect

or

dissect -c /path/to/config.ini

or

dissect -f /path/to/flowcell.ini

Docs.

Documentation is available here.