adamgayoso Goto Github PK

adamgayoso.github.io

anndata

Annotated data.

balanced-clustering

Reworked clustering metrics for assessing performance in imbalanced settings

bayesian-election-forecast

bioconda-recipes

Conda recipes for the bioconda channel.

biom-format

The Biological Observation Matrix (BIOM) Format Project

cell2location

Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)

conda-forge-pinning-feedstock

A conda-smithy repository for conda-forge-pinning.

cookiecutter-scverse

Cookiecutter template for scverse

figmasvg

jax

Composable transformations of Python+NumPy programs: differentiate, vectorize, JIT to GPU/TPU, and more

ml_math_cheat_sheet

mplscience

Matplotlib style for scientific publications

pydeseq2

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

pymde

Minimum-distortion embedding with PyTorch

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scanpy-tutorials

Scanpy Tutorials.

scib

Benchmarking analysis of data integration tools

scvelo

RNA Velocity generalized through dynamical modeling

scverse.github.io

scverse.org website

scvi

A deep generative model for gene expression profiles from single-cell RNA sequencing

scvi-tools-feedstock

A conda-smithy repository for scvi-tools.

scvi-tools-handbook

seqc

Single-Cell Sequencing Quality Control and Processing Software

single-cell-studies

Example analysis using the 'Single cell studies database'

singlecellopenproblems

Formalizing and benchmarking open problems in single-cell genomics

sphinx-automodapi

Sphinx extension for generating API documentation

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

stereoscope

Spatial mapping of cell types by integration of transcriptomics data

totalvi_reproducibility