Danread

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

esquisse

RStudio add-in to make plots interactively with ggplot2

training-collection

Collection of bioinformatics training materials

Prodigal

Prodigal Gene Prediction Software

chatgpt

Interface to ChatGPT from R

cols4all

Colors for all (R package)

mOTUs

motus - a tool for marker gene-based OTU (mOTU) profiling

platon

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

MuDoGeR

MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.

gemelli

Gemelli is a tool box for running Robust Aitchison PCA (RPCA), Joint Robust Aitchison PCA (Joint-RPCA), TEMPoral TEnsor Decomposition (TEMPTED), and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.

PlanktoScope

Open and Affordable Quantitative Imaging Platform

MicrobeCensus

MicrobeCensus estimates the average genome size of microbial communities from metagenomic data

MicEco

Various functions for analysis of microbial community data

speciesprimer

The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.

metagenomics

A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies

Phosphorus-cycling-database

This is a comprehensive database for fast and accurately analyzing the phosphorus cycling genes.

circlepackeR

R htmlwidget for circle packing visualization

reference_database_creator

creating reference databases for amplicon sequencing

microtrait

MARTi

Metagenomic Analysis in Real Time

MORA

MetagenOmic read Re-Assigner and abundance quantifier

mkCOInr

Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options

MetaBarFlow

Workflow for processing NGS data from metabarcoding experiments

LANDMark

Implementation of a decision tree ensemble which splits each node using learned linear and non-linear functions.

ribdif

Can individual species be differentiated by amplicon sequencing?

Cassandra

MsRDB-Manuscript-Code

This is the repository archiving code and data for MsRDB manuscript

MetaAnalyst

RasperGade

MicrobiomeCluster

This package includes basic functions calculating OTU and CROTU abundance. It also provides distance and levels of tree nodes and tips from its root. Researchers can use MicrobiomeCluster package to manipulate an existing tree by trimming or growing branches, or check if a Beta metric is suitable for clustering a dataset.