Pinned Repositories
bacterial_passengers.py
Bayes_Mixture_Models.py
BayesPy
Bayesian Inference Tools in Python
bt_wc
BT growth in WC media
cccRenal_metabolic_models.py
Student Project
FastNNGapfiller
Gapfill GSMMs with costs. Compatible with the ModelSEED db and aplicable to GapSeq draft reconstructions.
MAMBO
microbialTimeSeries
Practicals of the School on the Analysis of Microbial Time Series Data
state_of_the_art_gapfilling
Given an incomplete bacterial gene reaction network... complete it!
DNNGIOR
Scripts to build high-quality genome-scale metabolic model by using a deep neural network to guide gapfilling
danielriosgarza's Repositories
danielriosgarza/MAMBO
danielriosgarza/microbialTimeSeries
Practicals of the School on the Analysis of Microbial Time Series Data
danielriosgarza/bacterial_passengers.py
danielriosgarza/FastNNGapfiller
Gapfill GSMMs with costs. Compatible with the ModelSEED db and aplicable to GapSeq draft reconstructions.
danielriosgarza/state_of_the_art_gapfilling
Given an incomplete bacterial gene reaction network... complete it!
danielriosgarza/Bayes_Mixture_Models.py
danielriosgarza/bt_wc
BT growth in WC media
danielriosgarza/cccRenal_metabolic_models.py
Student Project
danielriosgarza/ChemSamp
Gillespie-like algorithm for microbial reaction networks
danielriosgarza/CRC_gene_set_enrichment
danielriosgarza/danielriosgarza.github.io
danielriosgarza/gaussian_mixture_models
danielriosgarza/helit
My machine learning/computer vision library for all of my recent papers, plus algorithms that I just like.
danielriosgarza/hh-suite
Remote protein homology detection suite.
danielriosgarza/hungerGamesModel
Dynamic model of a synthetic gut community
danielriosgarza/hydrogenProd
Lois PhD project rep
danielriosgarza/miaSim
microbiome data simulation package
danielriosgarza/microsimR
A Simulator Package with a collection of basic community models that outputs count data of microbial communities
danielriosgarza/MMseqs
danielriosgarza/NutritionOrNature
danielriosgarza/paramFit
danielriosgarza/pgnparser
A simple python PGN parser
danielriosgarza/reaction_set_evolution
Nature or nurture: disentagling the drivers of metabolic network evolution in bacteria
danielriosgarza/sharedColabBooks
Shared Google Colab notebooks used for teaching
danielriosgarza/strepto_phylogenomics
danielriosgarza/SyntheticMicrobiome
Modeling the dynamics of a synthetic human gut microbial community
danielriosgarza/Theano
Theano is a Python library that allows you to define, optimize, and evaluate mathematical expressions involving multi-dimensional arrays efficiently. It can use GPUs and perform efficient symbolic differentiation.
danielriosgarza/toyAMBR
danielriosgarza/umapFC
analyze FC data using UMAP
danielriosgarza/umapGatingFCdata