Integrative analysis for scRNA-seq and scTCR-/scBCR-seq data

A set of processes/pipelines for bioinformatics

scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy and efficient way.

plotthis is an R package that is built upon ggplot2 and other plotting packages.

Report generation system for pipen

A pipen CLI plugin to run commands via Google Cloud Batch.

A pipeline framework for python

Populate logs from jobs to running log of the pipeline

A job management system for python

A Grammar of Data Manipulation in python

A Python CLI that wraps common Linux commands for both local and cloud files

yunpath is a Python library that extends the pathlib library to support cloud storage services.

gglogger is an R package that logs the calls used to create ggplot2 objects.

Save running logs to file for pipen

An R package for enrichment (over-representation) analysis of gene sets.

Dry runner for pipen

Draw pipeline diagrams for pipen.

Add verbosal information in logs for pipen.

A simple plugin system for python with async hooks supported

Command line argument parser for pipen

Add a set of useful filters for pipen templates.

Simple configuration management with python

Checking the requirements for processes of a pipeline

Supercharged argparse for Python

Prism themes for plotnine, inspired by ggprism.

The pandas backend for datar

Visualizing configuration and running of pipen pipelines on the web

Marking pipen processes as deprecated.

Powerful statistics for VCF files