microsud

microsud's Stars

• microsoft/ML-For-Beginners

  12 weeks, 26 lessons, 52 quizzes, classic Machine Learning for all

  Language:HTML69.9k1k13614.6k

• KindXiaoming/pykan

  Kolmogorov Arnold Networks

  Language:Jupyter Notebook15.1k1124131.4k

• madler/pigz

  A parallel implementation of gzip for modern multi-processor, multi-core machines.

  Language:C2.7k6393177

• kblin/ncbi-genome-download

  Scripts to download genomes from the NCBI FTP servers

  Language:Python95635145174

• oschwengers/bakta

  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

  Language:Python4521423955

• bactopia/bactopia

  A flexible pipeline for complete analysis of bacterial genomes

  Language:Nextflow4171451672

• MrOlm/drep

  Rapid comparison and dereplication of genomes

  Language:Python264822638

• bluenote-1577/sylph

  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.

  Language:Rust1913177

• TongZhou2017/itol.toolkit

  Helper Functions for Interactive Tree Of Life (iTOL)

  Language:R15751717

• stefpeschel/NetCoMi

  Network construction, analysis, and comparison for microbial compositional data

  Language:R156712628

• MrOlm/inStrain

  Bioinformatics program inStrain

  Language:Python148718233

• openpharma/mmrm

  Mixed Models for Repeated Measures (MMRM) in R.

  Language:R134824823

• nf-core/taxprofiler

  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data

  Language:Nextflow12815520536

• gbouras13/dnaapler

  Reorients assembled microbial sequences

  Language:Python1023253

• njudd/ggrain

  {package} Make beautiful Raincloud plots in R!

  Language:R722114

• grp-bork/gunc

  Python package for detection of chimerism and contamination in prokaryotic genomes.

  Language:Python685398

• ModelSEED/ModelSEEDDatabase

  This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach

  Language:HTML57226140

• Kalan-Lab/zol

  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)

  Language:Python50254

• gtonkinhill/TCGA_analysis

  Language:HTML27325

• leylabmpi/SynTracker

  SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.

  Language:Python25426

• WatsonLab/KOunt

  Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.

  Language:Python24350

• simon-smart88/shinyscholar

  A template for creating modular shiny applications that meet academic standards and are reproducible

  Language:R173134

• Xiaoyu2425/mEQO

  Language:R15261

• aghozlane/masque

  Metagenomic AnalySis with QUantitative pipEline

  Language:Python12214

• microbiome/miaViz

  Microbiome Analysis Plotting and Visualization

  Language:R1095312

• zellerlab/cayman

  Language:Python8343

• antonioggsousa/GTDB-RefSeq-RDP-assign-spp-dada2

  GTDB and RefSeq-RDP DBs parsed for the addSpecies() dada2 function

  Language:Python5000

• i2bc/CusProSe

  Language:HTML4100

• jedick/chem16S

  Chemical metrics for microbial communities

  Language:R4100

• renober/GeneHunt_V1

  Sequential HMM search for rapid protein domain identification

  Language:Shell111