78 projects
biopipen
Bioinformatics processes/pipelines that can be run from `pipen run`
pipen-cli-gbatch
A pipen cli plugin to run command via Google Cloud Batch
pipen
A pipeline framework for python
xqute
A job management system for python
pipen-report
Report generation system for pipen
panpath
Universal sync/async local/cloud path library with pathlib-compatible interface
liquidpy
A port of liquid template engine for python
pipen-cli-run
A pipen cli plugin to run a process or a pipeline
pipen-board
Visualization configuration and running of pipen pipelines on the web
pipen-cli-init
A pipen cli plugin to create a pipen project (pipeline)
pipen-deprecated
Marking pipen processes as deprecated
pipen-mcp
A pipen CLI plugin to expose processes/pipelines as MCP tools
pipen-email
Email notifications for pipen pipelines on status changes.
pipen-dry
Dry runner for pipen pipelines
pipen-gcs
A plugin for pipen to handle file metadata in Google Cloud Storage
pipen-poplog
Populate logs from jobs to running log of the pipeline
pipen-diagram
Draw pipeline diagrams for pipen.
pipen-lock
Process lock for pipen to prevent multiple runs at the same time
pipen-filters
Add a set of useful filters for pipen templates
pipen-runinfo
Generate running information for jobs in pipen pipelines
pipen-log2file
Add verbosal information in logs for pipen.
pipen-cli-ref
Make API reference documentation for pipen pipeline/processes
pipen-cli-require
A pipen cli plugin to check requirements for processes of a pipeline
pipen-args
Command-line argument parser for pipen.
pipen-verbose
Add verbosal information in logs for pipen.
pipen-annotate
Use docstring to annotate pipen processes
cloudsh
A Python CLI wrapping common Linux commands for local/cloud files.
python-simpleconf
Simple configuration management with python.
immunopipe
A pipeline for integrative analysis for scRNA-seq and scTCR-/scBCR-seq data
datar
A Grammar of Data Manipulation in python
datar-pandas
The pandas backend for datar
datar-numpy
The numpy backend for datar
datar-polars
The polars backend for datar
pipda
A framework for data piping in python
mkapi-fix
An Auto API Documentation tool.
argx
Super-charged argparse for python
varname
Dark magics about variable names in python.
datar-arrow
The pyarrow backend for datar
pdtypes
Show data types for pandas data frames in terminal and notebooks
simplug
A simple plugin system for python with async hooks supported
diot
Python dictionary with dot notation.
celltypist2
A tool for semi-automatic cell type classification (with numpy/pandas v2 compatibility)
yunpath
Monkey patch cloudpathlib to fix issues or add features
vcfstats
Powerful statistics for VCF files
plotnine-prism
Prism themes for plotnine, inspired by ggprism
pardoc
Yet another docstring parser for python
mkdocs-rtd
A fork of mkdocs readthedocs theme to make it work with mkapi
toml-bench
Benchmarking for python toml libraries
pxgpt
Your personal, powerful and private GPT.
cmdy
Shell language to run command in python
pyparam
Powerful parameter processing.
benchwork
A framework for benchmarking in python
medoo
A lightweight database framework for python
dotdict-bench
Benchmarking for dot-accessible dict packages in python
neutrapy
Command line tool for build a desktop app using neutralinojs and python
regexr
Regular expressions for humans
imtherapy-tmb
Tumor mutation burden feature transformation module for imtherapy
imtherapy
A framework to explore, select and discover predictive markers for cancer immunotherapy
pyppl-context
Upstream and downstream process reference for PyPPL
pyppl-strict
More strict check of job success for PyPPL
pyppl-echo
Echo script output to PyPPL logs
pyppl-export
Export outputs generated by PyPPL pipeline
pyppl-flowchart
Generating flowchart for PyPPL
pyppl-runners
More strict check of job success for PyPPL
pyppl-runcmd
Allowing to run local command before and after each process for PyPPL
pyppl-report
A report generating system for PyPPL
pyppl-require
Requirement manager for processes of PyPPL
pyppl
A Python PiPeLine framework
pyppl-rich
Richer information in logs for PyPPL
pyppl-jobtime
Job running time statistics for PyPPL
pyppl-lock
Preventing running processes from running again for PyPPL
pyppl-notify
Email notification for PyPPL
wigtools
A set of tools for wiggle file
pyppl-annotate
Adding long description/annotations for PyPPL processes.
completions
Shell completions made easy.
python-gff
A more general GFF/GTF parser
bioprocs
A set of PyPPL processes for bioinformatics.
remotedata
Accessing and caching remote data.
