tamascogustavo

tamascogustavo's Stars

• benjjneb/decontam

  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

  Language:R14524

• noraracht/CONSULT

  Accurate contamination removal using locality-sensitive hashing

  Language:C++142

• apptainer/apptainer

  Apptainer: Application containers for Linux

  Language:Go1.1k132

• fteufel/signalp-6.0

  Multi-class signal peptide prediction and structure decoding model.

  Language:Python7814

• H-M-H/Weylus

  Use your tablet as graphic tablet/touch screen on your computer.

  Language:Rust6.8k272

• ParBLiSS/FastANI

  Fast Whole-Genome Similarity (ANI) Estimation

  Language:C++36666

• amithkoujalgi/ollama-pdf-bot

  A bot that accepts PDF docs and lets you ask questions on it.

  Language:Python12427

• freedmand/semantra

  Multi-tool for semantic search

  Language:Python2.5k139

• moshi4/COGclassifier

  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category

  Language:Python526

• PATRIC3/mauve-viewer

  A Whole Genome Alignment Visualization Tool for the Web

  Language:JavaScript414

• EPFL-LCSB/nicepath

  Language:Python41

• sansubs/vcf2pop

  Language:HTML2511

• Spherotob/gcOpt

  Determination of product-growth-coupled strain designs employing stoichiometric metabolic models.

  Language:MATLAB3

• LCSB-BioCore/COBREXA.jl

  Constraint-Based Reconstruction and EXascale Analysis

  Language:Julia428

• pymc-devs/pymc

  Bayesian Modeling and Probabilistic Programming in Python

  Language:Python8.6k2k

• burakbayramli/books

  Source code for 200+ books, kept here for quick reference

  Language:Jupyter Notebook289188

• jensenlab/gapsplit

  Efficient random sampling for COBRA models

  Language:MATLAB121

• junegunn/fzf

  :cherry_blossom: A command-line fuzzy finder

  Language:Go63.9k2.4k

• ncbi/datasets

  NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.

  Language:Jupyter Notebook34939

• statsmodels/statsmodels

  Statsmodels: statistical modeling and econometrics in Python

  Language:Python10k2.9k

• draeger-lab/EscherConverter

  A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.

  Language:Java1510

• MD-Anderson-Bioinformatics/SAMMI

  Language:HTML31

• opencobra/optlang

  optlang - sympy based mathematical programming language

  Language:Python24250

• scipopt/PySCIPOpt

  Python interface for the SCIP Optimization Suite

  Language:JetBrains MPS791252

• WestHealth/pyvis

  Python package for creating and visualizing interactive network graphs.

  Language:HTML976165

• taynaud/python-louvain

  Louvain Community Detection

  Language:Python951199

• opencobra/cobrapy

  COBRApy is a package for constraint-based modeling of metabolic networks.

  Language:Python460216

• opencobra/m_model_collection

  A collection of M models downloaded from published studies

  Language:Jupyter Notebook1515

• cnapy-org/CNApy

  An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

  Language:Python447

• ModelSEED/ModelSEEDDatabase

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

  Language:HTML5338