gibsramen
Software Engineer @czbiohub-sf. Bioinformatics PhD interested in developing software & stats to tackle biological problems. NeoVim fanatic.
Chan-Zuckerberg BiohubSan Diego, CA
Pinned Repositories
BIRDMAn
Bayesian Inferential Regression for Differential Microbiome Analysis
evident
qadabra
Snakemake workflow for comparison of differential abundance ranks
BIRDMAn_Jr
evident_
Effect size calculations for microbiome data
ganttly
Gantt charts in Python
gUMAP
UMAP projection of Gower distances in Pokemon dataset
nvim
qupid
Case-control matching for microbiome data
xebec
Snakemake pipeline for microbiome diversity effect size benchmarking
gibsramen's Repositories
gibsramen/qupid
Case-control matching for microbiome data
gibsramen/qadabra
Snakemake workflow for comparison of differential abundance ranks
gibsramen/evident_
Effect size calculations for microbiome data
gibsramen/xebec
Snakemake pipeline for microbiome diversity effect size benchmarking
gibsramen/nvim
gibsramen/ganttly
Gantt charts in Python
gibsramen/q2-stensl
gibsramen/sourcetracker3
gibsramen/BIRDMAn
Bayesian Inferential Regression for Differential Microbiome Analysis
gibsramen/BIRDMAn-demo
gibsramen/empress
A very fast and scalable phylogenetic visualization viewer
gibsramen/evident
gibsramen/gemelli
Gemelli is a toolbox for running both Robust Aitchison PCA (RPCA) and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.
gibsramen/gibsramen.github.io
A refreshed version of Hyde for Jekyll 3.x
gibsramen/q2-benchmark
gibsramen/q2-diversity
gibsramen/qadabra-analyses
gibsramen/qupid-analyses
gibsramen/snakemake-slurm-profile
gibsramen/atlassian-python-api
Atlassian Python REST API wrapper
gibsramen/bento-tools
A Python toolkit for subcellular analysis of spatial transcriptomics data
gibsramen/CLAIM-scAEs
A tutorial for using an autoencoder neural network model to create a visually interpretable latent space of single cell expression data.
gibsramen/cmdstanpy
CmdStanPy is a lightweight interface to Stan for Python users which provides the necessary objects and functions to compile a Stan program and fit the model to data using CmdStan.
gibsramen/evident-analyses
gibsramen/hercules
QUBO Solver and Heuristic Toolbox
gibsramen/metagenomics_pooling_notebook
Jupyter notebooks to assist with sample processing
gibsramen/PPOPT
Software Platform for solving and manipulating multiparametric programs in Python
gibsramen/q2-convexhull
QIIME2 plugin for calculating the convex hull as a diversity metric
gibsramen/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
gibsramen/test-action