Pinned Repositories
.github
Public profile
fmh-funprofiler
A functional profiler for metagenomes using FracMinHash
FunUniFrac
Functional UniFrac for metagenomic data
Koslicki-lab-PSU
Website for Koslicki Lab.
MetagenomicKG
mutation-rate-ci-calculator
This software calculates a confidence interval for the mutation rate from a set of observed containment indices under a simple nucleotide mutation process.
prokrustean
useful_tools
Lab forum to share scripts, software, and technical issues
YACHT
A mathematically characterized hypothesis test for organism presence/absence in a metagenome
YACHT-reproducibles
A repo to reproduce the experiments in the YACHT manuscript
KoslickiLab's Repositories
KoslickiLab/YACHT
A mathematically characterized hypothesis test for organism presence/absence in a metagenome
KoslickiLab/MetagenomicKG
KoslickiLab/fmh-funprofiler
A functional profiler for metagenomes using FracMinHash
KoslickiLab/YACHT-reproducibles
A repo to reproduce the experiments in the YACHT manuscript
KoslickiLab/FunUniFrac
Functional UniFrac for metagenomic data
KoslickiLab/prokrustean
KoslickiLab/FracMinHash-reproducibles
To reproduce the analyses included in Scaled MinHash paper
KoslickiLab/ISMB-2023-Neo4j-workshop
Repository to support the 2023 ISMB Neo4j workshop
KoslickiLab/KEGG_sketching_annotation
Scripts to sketch KEGG and explore using FracMinHash as a way to functionally annotate a metagenome
KoslickiLab/YACHT_taxa_detector_experiments
KoslickiLab/DrugBankNER
ETL of DrugBank to recognize KG2 concepts in DrugBank entries for use as training data
KoslickiLab/FMH_vs_syncmer_reproducible
Benchmark for k-mer setsof FMH vs open syncmer
KoslickiLab/L2-UniFrac
Expansion upon Median Unifrac to compute average phylogenetic distances between samples according to their UniFrac distance without producing negative abundance vectors.
KoslickiLab/L2-UniFrac-Paper
KoslickiLab/LLMFactCheck
The "LLMFactCheck" is a powerful tool designed to semantic triples (subject–predicate–object) in different sources, ensuring the accuracy of references and enhancing the quality of your research.
KoslickiLab/.github
Public profile
KoslickiLab/dnds-using-fmh
KoslickiLab/Estimating_Unknowns
KoslickiLab/KGML-xDTD
Forked version of Chunyu's xDTD model
KoslickiLab/Koslicki-lab-PSU
Website for Koslicki Lab.
KoslickiLab/Strobemer_extension
Apply the k-mer truncation idea to Strobemer
KoslickiLab/Beta-diversity-of-mixtures-over-time
Beta diversity of mixtures over time
KoslickiLab/bioconda-recipes
Conda recipes for the bioconda channel.
KoslickiLab/branch-lengths-assignment
KoslickiLab/DnDs-visualization
A repo for the larger scale DnDs project, along with the visualization code
KoslickiLab/fmh_cosine_reproducibles
Reproducibility code for the manuscript "Cosine similarity using FracMinHash sketches"
KoslickiLab/frac-kmc
Fast FracMinHash sketch generator
KoslickiLab/KEGG_sketching_annotation_reproducibles
Reproducible scripts for all KEGG + Sourmash gather computations for the associated paper
KoslickiLab/KG2_DrugMechDB_EA_Analysis
Entity Alignment and Normalization between KG2 and DrugMechDB
KoslickiLab/xDTD-analysis-Stephanie-rotation