NataliHB

NataliHB's Stars

• steineggerlab/foldmason

  Multiple Protein Structure Alignment at Scale with FoldMason

  Language:C1119

• BigDataBiology/argNorm

  ARG normalization by mapping to the ARO ontology.

  Language:Python214

• pha4ge/hAMRonization

  Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

  Language:Python13725

• vinuesa/get_phylomarkers

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

  Language:Perl518

• Kalan-Lab/lsaBGC-Pan

  lsaBGC - suite for pan-BGC-omics analysis

  Language:Python122

• chklovski/CheckM2

  Assessing the quality of metagenome-derived genome bins using machine learning

  Language:Scilab16319

• geronimp/graftM

  GraftM - Rapid community profiles from metagenomes

  Language:Python4316

• AroneyS/binchicken

  Bin chicken - targeted recovery of low abundance metagenome assembled genomes through intelligent coassembly

  Language:Python13

• statdivlab/happi

  A Hierarchical Approach to Pangenomics Inference

  Language:R114

• statdivlab/paramedic

  Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations

  Language:R141

• PacificBiosciences/HiFi-16S-workflow

  Nextflow pipeline to analyze PacBio HiFi full-length 16S data

  Language:Nextflow5915

• JLSteenwyk/BioKIT

  a versatile toolkit for processing and analyzing diverse types of sequence data

  Language:Python2110

• ndombrowski/NanoClass2

  Language:Python1

• Sydney-Informatics-Hub/Shotgun-Metagenomics-Analysis

  Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more

  Language:Shell266

• linxingchen/PlasmidHunter

  This tool predicts plasmid sequences from genomic and metagenomic assemblies using machine learning.

  1

• MEDEAlab/WhereDoGGo

  A pipeline for prokaryotic phylogenomics. Place your new genomes on the tree of life.

  Language:Python21

• Arcadia-Science/noveltree

  NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.

  Language:Nextflow173

• linxingchen/cobra

  A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.

  Language:Python579

• moshi4/pyCirclize

  Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

  Language:Python71642

• ProbstLab/uBin

  Language:TypeScript191

• steineggerlab/Metabuli

  Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.

  Language:C++1089

• AnantharamanLab/annoVIBRANT

  Annotation-only wrapper for VIBRANT

  Language:Python3

• geronimp/enrichM

  Toolbox for comparative genomics of MAGs

  Language:Python8122

• DieStok/Basic-Machine-Learning-for-Bioinformatics

  ML course materials for bioinformatics students following the Basic Machine Learning for Bioinformatics course at Utrecht University. Course created and taught by Dieter Stoker.

  Language:Jupyter Notebook41

• raw-lab/MetaCerberus

  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focus of shotgun metaomics data

  Language:HTML467

• wwood/singlem

  Novelty-inclusive microbial community profiling of shotgun metagenomes

  Language:Python12416

• DamienFinn/MD

  Metagenomic diversity index calculator and example .faa contig data.

  Language:Python31

• guyleonard/genomics_adventure

  Workshop on Genomics - Genomics Adventure

  Language:Shell339

• chan-csu/SPAM-DFBA

  Formal repository for "Microbial Interactions from a New Perspective: Reinforcement Learning Reveals New Insights into Microbiome Evolution"

  Language:HTML44

• fwhelan/coinfinder

  A tool for the identification of coincident (associating and dissociating) genes in pangenomes.

  Language:C++929