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Name: Alise Ponsero
Type: User
Company: Quadram Institute
Bio: Bioinformatician at Quadram Institute of Biosciences
Location: Norwich
Blog: http://aliseponsero.fr/
Name: Alise Ponsero
Type: User
Company: Quadram Institute
Bio: Bioinformatician at Quadram Institute of Biosciences
Location: Norwich
Blog: http://aliseponsero.fr/
Scripts for 16S analysis and Picrust predictions
very simple metagenome simulator for 454 reads. Uses HPC parralelization to allow working with high number of genomes.
User interface for the AVrC
Script for the creation of simulated Amplicon datasets
Pipeline for parrallel Anvi'o on HPC (PBS scheduler)
pipeline to generate clusters of artificial metagenomes
pipeline to generate artificial metagenomes randomized on the composition
Pipeline for the generation of artificial metagenomes containing a variable number of organisms. Parrallelized for HPC.
Pipeline for metagenomic assemblies (Megahit, Spades or Skesa) parralelized on HPC
Miscellaneous scripts to enhance bash (prompt, adding directories to variables, ...)
Conda recipes for the bioconda channel.
434/534 Biosystems Analytics course at the University of Arizona
Pipeline for detection of potential AMG in assembled metagenome using BLAST
canopy clustering of gene catalogues
Cleaning pipeline for machine learning application using Centrifuge
Create a BLASTP database from a list a genomes from the Patric database
Interface for the CURE class - Data science heroes
Simple pipeline for 16S taxonomic analysis using dada2
scripts used in the De Novo comparative metagenomic project
download large number of files from the Cyverse datastore using irods
functional annotation pipeline for metagenomes, parralelized for HPC
scripts for generative arts
Pipeline to grind complete genome to mimic contig size and creation of artificial bins
Pipeline for the generation of mock haplotype communities - HPC parrallelization
HPC pipeline for parrallel assembly of WGS metagenomes (SLURM)
Pipeline for parrallel submission of BLASTX diamond jobs (SLURM scheduler)
HPC pipeline to dereplicate MAGs using dRep
Parrallel pipeline for Kraken2 and KrakenTools (SLURM)
HPC pipeline for 16S taxonomic profiling using Kraken2
QC and human read removal parallel pipeline for HPC (SLURM)
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Data-Driven Documents codes.
China tencent open source team.