Pinned Repositories
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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/Strobemer_extension
Apply the k-mer truncation idea to Strobemer
KoslickiLab/EdgeLengthsFromPWDistances
Comparing approaches to infer edge lengths on a tree with fixed topology when given all pairwise leaf node distances
KoslickiLab/KEGG_data_extraction
KoslickiLab/kegg-ko-annotation
KoslickiLab/CMash_Rust_implementation
KoslickiLab/Estimating_Unknown_Reproducibles
This repo is for an optimized version of https://github.com/sew347/Estimating_Unknown
KoslickiLab/Microbial_dark_matter_explore
Sketching-based approach to classify and explore MDM
KoslickiLab/WGSUniFrac
KoslickiLab/WGSUniFrac-reproducibles
KoslickiLab/useful_tools
Lab forum to share scripts, software, and technical issues
KoslickiLab/genome_updater
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
KoslickiLab/CMASH-reproducibles
KoslickiLab/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.
KoslickiLab/MOA-bioentity-recognition
Extracting drug MOA bioentities from DrugBank
KoslickiLab/CmashKmerAbundance
A repository demonstrating how CMash (containment MinHash) can be used to produce k-mer abundance histograms
KoslickiLab/mutation-rate-intervals
Support for "statistics of k-mers from a sequence undergoing a simple mutation process without spurious matches"
KoslickiLab/DiversityOptimization
Minimizing biological diversity to improve microbial taxonomic reconstruction