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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/
Alise Ponsero's Projects
innofinder_parrallel
Pipeline for parallelization of the InnoFinder tool. Use on an HPC system.
kmer_frequency_python
Python script to compute kmer frequency profile from Fasta formated sequences
lcms_process
Script to process the results from the LCMS milk experiment
lichen_mock_metagenomes
Pipeline to generate mock lichen metagenomes. Parralelized for a HPC use
lichen_mock_metagenomes_gemsim
Pipeline for the generation of lichen mock communities using GemSim. Parralellize for HPC using PBS scheduler.
mags_annotate
Parallelized pipeline (SLURM scheduler) for MAGs functional annotation
mags_hpcpipeline
Parralelized pipeline (SLURM scheduler) for the generation of MAGs
mags_viralfinder
Pipeline for the detection and characterization of prophages sequences in genomes and MAGs
marvel_docker
Docker container for MARVEL
marvel_parrallel
Pipeline for parrallel MARVEL on HPC (PBS scheduler)
metaphlan3_snakemake
Snakemake pipeline for the download of datasets from irods, QC and taxonomic annotation by Metaphlan3
ml_feature_extraction_training
pipeline for features extraction (kmer frequency count) to train a linear classifier
multi-omics_integration
R scripts for multi-omics statistical integration
pedestrian_lights_detection
Scripts for creating a pedestrian light detection model on the UA HPC
planet-microbe-scripts
Planet Microbe scripts and examples
prokka
Fork of :zap: :aquarius: rapid prokaryotic genome annotation to add --notbl2asn
readbased_metagenomes_snakemake
Snakemake workflow for the standard read-based annotation of metagenomes
rvisualisations_tidytuesday
Learning R vizualisation and data wrangling through the awesome tidytuesday !
sequence_analysis_workshop_2020
Material for the KEYS 2020 workshop - What can we learn from a single DNA sequence?
sequence_analysis_workshop_2021
KEYS workshop: what can we learn from a single sequence?
shiny_app_workshop_2020
Material for the ResBaz 2020 workshop - Intro to Shiny app development
shiny_assignment12
Basic Shiny app for the assignment 12 of the BE587-Metag-2019 class
shiny_assignment8
Shiny app for the assignment 8 of the BE587-Metag-2019 class
sra_download
Script to download a list of runs from SRA. Pipeline for HPC with SLURM scheduler
taxminer
Taxonomic annotations - BLAST alignment and text-mining based filtration in R
tidytuesday
Official repo for the #tidytuesday project
transition_plot_function
Visualization of between-time point cluster transitions
uproc
Tools for ultra-fast protein sequence classification.
uproc_amg_detection
Pipeline for detection of potential AMG in assembled metagenome using UPROC
vibrant_parrallel
Pipeline for parrallel Vibrant on HPC (PBS scheduler)
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