ryan2han

inVAE

Invariant Representation learning

scanpydoc

Collection of Sphinx extensions similar to (but more flexible than) numpydoc

zellkonverter

Conversion between scRNA-seq objects

cellrank

CellRank: dynamics from multi-view single-cell data

kana

Single cell analysis in the browser

PyComplexHeatmap

PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)

CytoPlots

A small package of plotting utilities for use when analysing cytometry data in Python

scar

scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics

FlowKit

A Python toolkit for flow cytometry analysis supporting GatingML and FlowJo workspaces

Streamlit_DataScience_Apps

Streamlit Data Science and ML Apps in Python

awesome-streamlit

The purpose of this project is to share knowledge on how awesome Streamlit is and can be

streamlit_freecodecamp

Build 12 Data Apps in Python with Streamlit

streamlit-example

Example Streamlit app that you can fork to test out share.streamlit.io

streamlit

Streamlit — A faster way to build and share data apps.

dash

Data Apps & Dashboards for Python. No JavaScript Required.

diffxpy

Differential expression analysis for single-cell RNA-seq data.

single-cell-analysis-nf

(Semi-)automatization of scRNA-seq QC, filtering and normalization down to an initial clustering based on scanpy and nextflow. Attempts to implement Malte Lücken's best practices: https://www.embopress.org/doi/full/10.15252/msb.20199416

nf_scrna_qc

Single cell RNA-seq quality control, transcription profile clustering & cell-type assignment

scqc

Meta-QC analysis of single cell RNAseq datasets

scyan

Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effect and can be used for debarcoding or population discovery.

Scientific-Inkscape

Scientific Inkscape: Inkscape extensions for figure resizing and editing

scanpro

minimal-nextflow-template

Template repo for minimal nextflow pipelines. Use this instead of manually submitting SGE jobs.

simple-scvi

Example repo of using scvi-tools building blocks externally with simplified scVI implementation

scFlow-Workshop

Materials for the scFlow Workshop

scflowpy

Python helper package for scFlow

scFlow

Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.

liana-py

LIANA+: an all-in-one framework for cell-cell communication

singularity-catalog

The Singularity Community Catalog of Singularity* recipe files.

airway_allergic_asthma