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advancedbioinfod3

advrassignment

bioframe

Pandas utilities for tab-delimited and other genomic data files

bs_processing

Bs-seq data processing

cellatac

Sanger Cellular Genetics single-cell ATAC-seq pipeline.

cellatacutils

R package for handling cellatac pipeline output

cookiecutter-scverse

Cookiecutter template for scverse

emdann.github.io

Personal website

friendly-collab-party

Testing github

friendly-collab-party-1

testing GitHub

hexamerbias

Random hexamer bias analysis

hexamermodel

kbroman.github.io

Karl Broman's website

lm

milopy

Python implementation of Milo for differential abundance testing on KNN graph

momicstools

A collection of resources and knowledge for analysis of scATAC+scRNA multi omics data

multiomic_benchmark

Comparison of multi-omic integration methods for single-cell data.

multisample-sc-analysis

An overview of datasets and tools for multi-condition single-cell analysis

ncem

Learning cell communication from spatial graphs of cells

pertpy

Perturbation Analysis in the scverse ecosystem.

pertpy-tutorials

pypictionary

Interactive python notebook to play pictionary

sc_target_evidence

Meta-analysis of drug target evidence in single-cell data

scanpy_hacks

scatac_prep

A not-too-orderly collection of scripts for preprocessing and dimensionality reduction of scATAC-seq data

scverse-tutorials

Tutorials for learning scverse

sfaira-data-curator

Scripts to curate local data stored in h5ad format

singlecellopenproblems

Formalizing and benchmarking open problems in single-cell genomics

snapatac

Single Nucleus Analysis Pipeline for ATAC-seq

starters

Computational setup checklist for new starters