Alise Ponsero's repositories
Windows-Subsystem-For-Linux-Setup-Guide
An in-depth Guide for getting started with the Windows Subsystem for Linux!
DeNovo_comparative_metagenomic
scripts used in the De Novo comparative metagenomic project
Artificial_metagenomes_clusters
pipeline to generate clusters of artificial metagenomes
Artificial_metagenomes_variableSize
Pipeline for the generation of artificial metagenomes containing a variable number of organisms. Parrallelized for HPC.
ML_Feature_Extraction_TRAINING
pipeline for features extraction (kmer frequency count) to train a linear classifier
Artificial_metagenomes_randomize
pipeline to generate artificial metagenomes randomized on the composition
multi-omics_integration
R scripts for multi-omics statistical integration
Web-agenda
Small test project of website containing an admin space and a reservation management system
VirFinder_Tara_trained_models
Machine learning models for VirFinder trained using the Tara Ocean viromes and metagenomes
Clean_centrifuge
Cleaning pipeline for machine learning application using Centrifuge
454meta_simulator
very simple metagenome simulator for 454 reads. Uses HPC parralelization to allow working with high number of genomes.
VirFinder_ensemble_training
Scripts for training of an ensemble of linear classifiers using VirFinder
kmer_frequency_python
Python script to compute kmer frequency profile from Fasta formated sequences
Bash-scripts
Miscellaneous scripts to enhance bash (prompt, adding directories to variables, ...)
UPROC_AMG_detection
Pipeline for detection of potential AMG in assembled metagenome using UPROC
BLAST_AMG_detection
Pipeline for detection of potential AMG in assembled metagenome using BLAST
CreateDB-BLASTP-Patric
Create a BLASTP database from a list a genomes from the Patric database
prokka
Fork of :zap: :aquarius: rapid prokaryotic genome annotation to add --notbl2asn
vim-devicons
:symbols: Adds file type glyphs/icons to popular Vim plugins: NERDTree, vim-airline, Powerline, Unite, vim-startify and more
uproc
Tools for ultra-fast protein sequence classification.