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
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
celescope-1.7.2.tar.gz
(2.5 MB
view hashes)
Built Distribution
Close
Hashes for celescope-1.7.2-py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 753401eb1d1fe4948ef0ccf7f6af256ae6b62961e123e63c05f7ed52d93ce21d |
|
MD5 | 67e4b34ad46b4b1fcaf71b98a3ec9831 |
|
BLAKE2b-256 | 9558c44e2d6dc9a0c2957310a10cf4256f7602d3c0adbfa516d84c4029c9754d |