kukutec

kukutec's Stars

• karpathy/LLM101n

  LLM101n: Let's build a Storyteller

  29.6k2.3k01.6k

• AnswerDotAI/fasthtml

  The fastest way to create an HTML app

  Language:Jupyter Notebook5.4k45323230

• avehtari/BDA_py_demos

  Bayesian Data Analysis demos for Python

  Language:Jupyter Notebook995561300

• cmdcolin/awesome-genome-visualization

  A list of interesting genome browser or genome-browser-like implementations

  Language:TypeScript853289109

• shenwei356/taxonkit

  A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV

  Language:Go37599829

• biobakery/MetaPhlAn

  MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data

  Language:Python3012020586

• miso-lims/miso-lims

  MISO: An open-source LIMS for NGS sequencing centres

  Language:Java2531823497

• nf-core/mag

  Assembly and binning of metagenomes

  Language:Nextflow213160290110

• DRL/blobtools

  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets

  Language:Python191910344

• nf-core/ampliseq

  Amplicon sequencing analysis workflow using DADA2 and QIIME2

  Language:Nextflow186151345117

• biocore/emp

  Code repository of the Earth Microbiome Project.

  Language:Jupyter Notebook158516868

• facebookresearch/bio-lm

  We evaluate many models used for biomedical and clinical nlp tasks, and train new models that perform much better.

  Language:Python156181424

• nf-core/taxprofiler

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

  Language:Nextflow12814720334

• applied-bioinformatics/iab2

  An Introduction to Applied Bioinformatics, 2nd Edition

  Language:TeX1243415

• steineggerlab/Metabuli

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

  Language:C++11763410

• cafferychen777/ggpicrust2

  Make Picrust2 Output Analysis and Visualization Easier

  Language:R108210312

• AllTheBacteria/AllTheBacteria

  Follow up to Grace Blackwell's 661k dataset, for 2023

  Language:Python8123314

• SchlossLab/mikropml

  User-Friendly R Package for Supervised Machine Learning Pipelines

  Language:R54915117

• statdivlab/radEmu

  Language:R494478

• 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:HTML485267

• danknights/mice8992-2016

  Code used in MiCE 8992 Spring 2016

  Language:HTML438037

• cultivarium/GenomeSPOT

  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome

  Language:Jupyter Notebook35472

• datalorax/anderson-cv

  My CV, made with R Markdown via the pagedown package with some custom HTML and CSS

  Language:JavaScript232112

• pb3lab/workshops

  Workshops on Computational Biology organized by our lab

  Language:Jupyter Notebook101

• emo-bon/MetaGOflow

  MGnify oriented implementation for the Marine Genomic Observatories oriented pipeline, developed in the framework of an EOSC-Life funded project

  Language:Python71228

• tqiaowen/LSTrAP-Cloud

  Co-expression Network on Google Colaboratory.

  Language:Jupyter Notebook6

• zeroknowledgediscovery/qbiome

  Microbiome Analysis Powered By Recursive Quasi-species Networks: Uncovering rules of organization, competition, succession and exploitation

  Language:Jupyter Notebook41

• gene2dis/BugBuster

  Repository for general metagenomics Nextflow pipeline

  Language:Nextflow30

• gene2dis/mgap

  Language:Nextflow21

• Zymo-Research/aladdin-miqScore16S

  Nextflow pipeline that calculates MIQ score. Compatible with Aladdin platform

  Language:Nextflow1