cell-bin 1.2.6

A framework for generating single-cell gene expression data

A framework for generating single-cell gene expression data

WHL

If you just want to use this repo, you may download whl, install it using pip. (very fast)

cellbin-0.7.0 whl and later will move to the drive below

BGI new cloud

• Have shared link to product, develop and research
• If you do not have permission, please ask [e-mail]

cellbin-0.6.2 and older whl, please see below link

BGI cloud

Version notes

Installation

Both on Windows or Linux (CentOS, Ubuntu), just

pip install -r requirements.txt

Pyvips linux installation

# linux environ install pyvips using conda
conda install --channel conda-forge pyvips

Pyvips windows install vips from vips

pip install --user pyvips==2.2.1

# add vips path when running python script
import os
vipsbin = r'c:\vips-dev-8.13\bin'
os.environ['PATH'] = vipsbin + ';' + os.environ['PATH']

Develop mode

git clone https://gitlab.genomics.cn/biointelligence/implab/stero-rnd/cellbin/algorithms/cellbin.git
conda activate env # activate your env
python setup.py develop --no-deps  # develop mode, if you already have deps installed

Usage

• API doc
• How to get weights?

contribute

We love your input! We want to make contributing to cellbin as easy and transparent as possible. Please see,

• When you need to change other people's modules, remember to note the change information in the change location. like, a = 0 # parameter value to zero [by jack]

Thank you to all our contributors!

Cellbin HUB

• ImageQC-Research
• Pipeline-Research

Contact

For cellbin bugs and feature requests please visit