Pinned Repositories
Bracken
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
cutadapt
Cutadapt removes adapter sequences from sequencing reads
FastQC
A quality control analysis tool for high throughput sequencing data
GTDB_Kraken
Kraken(2) database based on the GTDB project
kraken2
The second version of the Kraken taxonomic sequence classification system
KrakenTools
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
krakenuniq
🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
Krona
Interactively explore metagenomes and more from a web browser.
Trimmomatic
kraken2
The second version of the Kraken taxonomic sequence classification system
christopherwilliamlee's Repositories
christopherwilliamlee/Bracken
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
christopherwilliamlee/cutadapt
Cutadapt removes adapter sequences from sequencing reads
christopherwilliamlee/FastQC
A quality control analysis tool for high throughput sequencing data
christopherwilliamlee/GTDB_Kraken
Kraken(2) database based on the GTDB project
christopherwilliamlee/kraken2
The second version of the Kraken taxonomic sequence classification system
christopherwilliamlee/KrakenTools
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
christopherwilliamlee/krakenuniq
🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
christopherwilliamlee/Krona
Interactively explore metagenomes and more from a web browser.
christopherwilliamlee/Trimmomatic
christopherwilliamlee/Metagenomics-Index-Correction
christopherwilliamlee/ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers
christopherwilliamlee/PathoScope
Pathoscope: Species identification and strain attribution with unassembled sequencing data
christopherwilliamlee/pgsc_calc
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
christopherwilliamlee/picrust2
Code, unit tests, and tutorials for running PICRUSt2
christopherwilliamlee/ref_soil
christopherwilliamlee/seqtk
Toolkit for processing sequences in FASTA/Q formats
christopherwilliamlee/Struo
Ley Lab MetaGenome Profiler DataBase generator