Leandro Hermida's repositories
sklearn-bio-workflows
Framework to build, evaluate, select, and compare ML classification and regression models using high-dimensional biological data and other covariates
perl-rna-seq-star
STAR + HTSeq + featureCounts RNA-seq processing pipeline environment and wrapper script, including SRA query, download, and caching functionality and useful reuse/restart features
cancer-mbiome-ict-net
Cancer microbiome immune checkpoint therapy network analysis
dragonfish
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
sklearn-extensions
scikit-learn extensions
sksurv-bio-workflows
Framework to build, evaluate, select, and compare ML survival analysis models using high-dimensional biological data and other covariates
sksurv-extensions
scikit-survival extensions
covid_metabolism
Metabolic modeling of SARS-CoV-2 infection and antiviral target prediction
CSI-Microbes-identification
Code for the identification step for CSI-Microbes
feature-id-mapping
Feature ID Mapping Script Repository
fuzzy-kmer-seq-aligner
Fuzzy k-mer local sequence aligner inspired by Healy J, Chambers D. Approximate K-mer Matching Using Fuzzy Hash Maps (2014) though with many changes and enhancements
gp-sym-regr-bio
Genetic programming symbolic regression vs standard supervised machine learning methods for prediction in biological data
ml-lung-cancer
ML prediction in lung cancer
ml-resp-cancer-mbiome
ML prediction of drug response in cancer using microbiome data
ml-resp-cancer-xcell-gex
ML prediction of drug response in cancer from xCell and gene expression data
pufferfish
An efficient index for the colored, compacted, de Bruijn graph
rna-seq-star-gex
STAR + edgeR/DESeq2/limma-voom + GSEA RNA-seq gene expression analysis workflow
rpy2-feedstock
A conda-smithy repository for rpy2.
scikit-feature
open-source feature selection repository in python (DMML Lab@ASU)
scikit-learn
scikit-learn: machine learning in Python
scikit-survival
Survival analysis built on top of scikit-learn
snakemake-wrappers
Snakemake modular component wrappers for use in workflows