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aldex2_dev

ALDEx tool to examine compositional high-throughput sequence data with Welch's t-test

ancom-bc-code-archive

Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction"

ancombc

Differential abundance (DA) analysis for microbial absolute abundance data

automlsa2-examples

Example datasets for automlsa2 script.

bioawk

BWK awk modified for biological data

blast_plus_docs

clinker

Gene cluster comparison figure generator

clustermap.js

culturome

easyamplicon

Easy Amplicon data analysis pipeline

fastspar

Rapid and scalable correlation estimation for compositional data

galaxy_blast

Galaxy wrappers for NCBI BLAST+ and related BLAST tools.

iqtree2

NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood http://www.iqtree.org

jgi-query

A simple command-line tool to download data from the Joint Genome Institute's database

jvarkit

Java utilities for Bioinformatics

mafft

Align multiple amino acid or nucleotide sequences.

microbiomemarker

R package for microbiome biomarker discovery

nst

Normalized Stochasticity Ratio in community assembly

obsidian_vault_template_for_researcher

This is an vault template for researchers using obsidian.

organic_citrus_zxpsb

peanut-maize-intercropping-microbiome

picrust2

Code, unit tests, and tutorials for running PICRUSt2

q2-srs

QIIME 2 plugin for microbiome count data normalization by scaling with ranked subsampling (SRS)

q2-taxa

seqkit

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang

sheng-xin-xiao-bai-yu

历史文档备份（只包含2019年和2020年）

sheng-xin-xiao-bai-yu-2021

历史文档备份（2021年）

sheng-xin-xiao-bai-yu-2022

历史文档备份（2022年）

sheng-xin-xiao-bai-yu-2023

历史文档备份（2023年）

zotero-better-bibtex

Make Zotero effective for us LaTeX holdouts