ricomnl's repositories
bioinformatics-pipeline-tutorial
A tutorial on how to create bioinformatics pipelines as bash scripts, Makefiles and using tools like Nextflow.
Udacity-Cloud-DevOps-Engineer-Nanodegree
Project files for Udacity Cloud DevOps Engineer Nanodegree Program
ACTIONet
ACTIONet single-cell analysis framework
cNMF
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
countland
tools in python and R for analyzing biological count data, especially from single cell RNAseq
decoupler-py
Python package to infer biological activities from omics data using a collection of methods.
kb_python
A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
metaflow
:rocket: Build and manage real-life data science projects with ease!
Module-3
Module 3 - Efficiency
Module-4
Module 4 - Networks
mrvi
Multi-resolution Variational Inference
nimfa
Nimfa: Nonnegative matrix factorization in Python
Palantir
Single cell trajectory detection
Probabilistic-Programming-and-Bayesian-Methods-for-Hackers
aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)
pytometry
Flow & mass cytometry analytics.
RcppML
Rcpp Machine Learning: Fast robust NMF, divisive clustering, and more
scHPF
Single-cell Hierarchical Poisson Factorization
scvi-tools
Deep probabilistic analysis of single-cell omics data
SEACells
SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
streamlit-plotly-events
Streamlit component that allows Plotly events to bubble back up to streamlit. Makes Plotly charts interactive!
Tensor-Puzzles
Solve puzzles. Improve your pytorch.
TRUST4
TCR and BCR assembly from RNA-seq data
Udacity-Cloud-DevOps-Nanodegree-Capstone
Capstone Project for the Udacity Cloud DevOps Nanodegree