danieljosephgomez

danieljgomez

Professional Page (most updated)

danieljosephgomez

danieljosephgomez.github.io

Daniel's personal webpage

gtex-v8

Notebooks and scripts for reproducing analyses and figures from the V8 GTEx Consortium paper

liana-py

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

stellar

vitessceR

R API and htmlwidget for Vitessce

cwltool

Common Workflow Language reference implementation

galaxy

Data intensive science for everyone.

istar

maxfuse

biofx_python

Code for Mastering Python for Bioinformatics (O'Reilly, 2021, ISBN 9781098100889)

CHM13

The complete sequence of a human genome

codex-pipeline

CODEX data processing code

Coffee-Lover

GASTON

genomics-workshop

gtex-pipeline

GTEx & TOPMed data production and analysis pipelines

intro_dgm

"Deep Generative Modeling": Introductory Examples

MyProject

ott

Optimal transport tools implemented with the JAX framework, to get differentiable, parallel and jit-able computations.

reproducible-research

scGPT

scGPT fine-tuned to an NeuroExerkineMap

sma

sopa

Technology-invariant pipeline for spatial-omics analysis (Xenium / MERSCOPE / CosMx / PhenoCycler / MACSima / Hyperion) that scales to millions of cells

spatial

Single-Cell Spatial Explorer

SpiceMix

spatial transcriptome, single cell

Stereopy

A toolkit of spatial transcriptomic analysis.