Single Cell Analysis Pipelines
Project description
CeleScope
CeleScope is a collection of bioinfomatics analysis pipelines developed at Singleron to process single cell sequencing data generated with Singleron products. These pipelines take paired-end FASTQ files as input and generate output files which can be used for downstream data analysis as well as a summary of QC criteria.
Detailed docs can be found in manual.
Hardware/Software Requirements
- minimum 32GB RAM(to run STAR aligner)
- conda
- git
Installation
- Clone repo
git clone https://github.com/singleron-RD/CeleScope.git
- Create conda environment and install conda packages
cd CeleScope
conda create -n celescope -y --file conda_pkgs.txt
Alternatively, you can use mamba to improve speed.
conda install mamba
mamba create -n celescope -y --file conda_pkgs.txt
- Install celescope
Make sure you have activated the celescope
conda environment before running pip install celescope
.
conda activate celescope
pip install celescope
Quick start
Project details
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