htgp's starred repositories
Awesome-Bio-Foundation-Models
A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.
viroprofiler
A containerized bioinformatics pipeline for viral metagenomic data analysis
HiFi-16S-workflow
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
VirSorter2
customizable pipeline to identify viral sequences from (meta)genomic data
2021-iScience-Phageome
Companion scripts used for exploring the phageome
download-refseq-genomes
Perl script to download genomes within a clade from NCBI Refseq
selective_primer_finder
Finds candidate kmers with high variability between an inclusion and an exclusion group to design qPCR assays.
ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers
16S-SNAPP-py3
16S SNAPP on Python 3
16s-capture
Pipleine code for "Sensitive identification of bacterial DNA in clinical specimens by broad range 16S rRNA enrichment"
variant-calling-pipeline
HPC based pipelines for variant calling using GATK
variant-calling-pipeline-gatk4
Variant Calling Pipeline Using GATK4 and Nextflow