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Search results for microbiology

30 search results found

Microbiome ⭐ 257

microbiome R package

Rapid comparison and dereplication of genomes

Ppanggolin ⭐ 191

Build a partitioned pangenome graph from microbial genomes

Pygenomeviz ⭐ 177

A genome visualization python package for comparative genomics

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

Referenceseeker ⭐ 85

Rapid determination of appropriate reference genomes.

Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial properties by using evidence-based methods, as described in https://doi.org/10.18637/jss.v104.i03.

Get_phylomarkers ⭐ 39

A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches

Rdptools ⭐ 36

Collection of commonly used RDP Tools for easy building

Metagenomic pipeline and other general scripts used in the lab.

Bac Genomics Scripts ⭐ 28

Collection of scripts for bacterial genomics

Ghost Tree ⭐ 23

creating hybrid-gene phylogenetic trees for diversity analyses

Plasmidid ⭐ 22

PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification.

Idbacapp ⭐ 20

A MALDI Mass Spectrometry Bioinformatics Platform

Phantasm ⭐ 20

PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes

Microbiomer ⭐ 17

A comprehensive R package for microbiome analysis.

A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.

Hamroaster ⭐ 15

hAMRoaster is an analysis pipeline that can compare the output of nine different tools for detecting AMR genes and provide metrics of their performance

Kg Microbe ⭐ 14

Onepetri ⭐ 11

Accelerate common Petri dish assays with AI.

A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima

MGKit: Metagenomics Framework

Inofficial R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber). https://api.bacdive.dsmz.de/client_examples seems to be the official alternatives.

📜 the Great Automatic Nomenclator — The Next Million Names for Archaea and Bacteria

SPIRO is a Smart Plate Imaging Robot

Bacterial video tracking & analysis

Onepetri Models ⭐ 6

Repository containing trained YOLOv5 object detection models used within OnePetri for Petri dish and plaque detection.

Ddotcounter ⭐ 6

Simple counting of bacterial colonies from pictures of plates.

Guidemaker ⭐ 5

GuideMaker: Software to design CRISPR-Cas guide RNA pools in non-model genomes

Viroverse ⭐ 5

a platform for the collection, storage, retrieval, and analysis of experimental data for laboratory workflows

1-30 of 30 search results

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