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abricate

:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes

awesome

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

awesome-chatgpt-prompts-zh

ChatGPT 中文调教指南。各种场景使用指南。学习怎么让它听你的话。

bac-genomics-scripts

Collection of scripts for bacterial genomics

chewbbaca

BSR-Based Allele Calling Algorithm

chicken-pangenome-paper

Scripts used to perform analyses in Rice et al. (2023)

clin-mngs

Clin-mNGS: Automated pipeline for pathogen detection from clinical metagenomic data

cobra_analysis

cobrapy

COBRApy is a package for constraint-based modeling of biological networks

codon-usage

Analyse Codon Usage in E.coli and S.solfataricus

codonpy

cvn001.github.io

Hexo Blog

deeplearning-biology

A list of deep learning implementations in biology

dimensionreduction

Shiny app for dimension reduction using UMAP and t-SNE

dna-seq-gatk-variant-calling

This Snakemake pipeline implements the GATK best-practices workflow

easymicrobiome

Scripts and databases for amplicon and metagenome

eggnog-mapper

enterobasegenomeassemblydownload

Python script for downloading assemblies from enterobase

ggplot2-china-map

Use ggplot2 to plot China map, and provide a JSON file of coordinates of major Chinese cities

gitskills

go_kegg_annotation

GO KEGG annotation

haphpipe

NGS viral assembly and population genetics

hiv-drives

hivepisimanalysis

hivmmer

Alignment and variant-calling pipeline for Illumina HIV sequences.

kraken2

The second version of the Kraken taxonomic sequence classification system

kvasir

Searching for Horizontal Gene Transfer

learngit

lskscripts

A placeholder for all my random scripts. Some scripts might eventually graduate and go to their own projects, so don't be surprised if anything leaves in the future.

lumix-v-log-luts

Free LUTs for Panasonic Lumix Vlog color grading