Pinned Repositories
Aggregated_Viral_Catalogue
User interface for the AVrC
Generative_art
scripts for generative arts
HPC_ViralDetection
Parallel pipeline using Virsorter2 and DeepVirFinder to identify viral contigs from WGS assemblies
kmer_frequency_python
Python script to compute kmer frequency profile from Fasta formated sequences
MAGs_annotate
Parallelized pipeline (SLURM scheduler) for MAGs functional annotation
nf_AmpliMock
Nextflow pipeline to generate simulated amplicon datasets
pedestrian_lights_detection
Scripts for creating a pedestrian light detection model on the UA HPC
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
simple_parsers
A collection of parser scripts to make life a little easier for microbiome analysts
aponsero's Repositories
aponsero/HPC_ViralDetection
Parallel pipeline using Virsorter2 and DeepVirFinder to identify viral contigs from WGS assemblies
aponsero/Aggregated_Viral_Catalogue
User interface for the AVrC
aponsero/MAGs_annotate
Parallelized pipeline (SLURM scheduler) for MAGs functional annotation
aponsero/nf_AmpliMock
Nextflow pipeline to generate simulated amplicon datasets
aponsero/simple_parsers
A collection of parser scripts to make life a little easier for microbiome analysts
aponsero/Resistome_ReadBased_Snakemake
Snakemake pipeline for Resistome and Mobilome annotation of unassembled metagenomes
aponsero/canopy2_conda
canopy clustering of gene catalogues
aponsero/CURE_interface
Interface for the CURE class - Data science heroes
aponsero/dada2_16Sprocessing
Simple pipeline for 16S taxonomic analysis using dada2
aponsero/HPC_assembly
HPC pipeline for parrallel assembly of WGS metagenomes (SLURM)
aponsero/HPC_DiamondX
Pipeline for parrallel submission of BLASTX diamond jobs (SLURM scheduler)
aponsero/HPC_dRep_MAGs
HPC pipeline to dereplicate MAGs using dRep
aponsero/HPC_Kraken2_KrakenTools
Parrallel pipeline for Kraken2 and KrakenTools (SLURM)
aponsero/HPC_KrakenFor16S
HPC pipeline for 16S taxonomic profiling using Kraken2
aponsero/HPC_QC_humanReads
QC and human read removal parallel pipeline for HPC (SLURM)
aponsero/Humann_annotation_HPC
Pipeline for the parrallel use of Humann (functional annotation of metagenomes) in HPC - Slurm scheduler
aponsero/lichen_mock_metagenomes
Pipeline to generate mock lichen metagenomes. Parralelized for a HPC use
aponsero/MAGs_HPCpipeline
Parralelized pipeline (SLURM scheduler) for the generation of MAGs
aponsero/MAGs_ViralFinder
Pipeline for the detection and characterization of prophages sequences in genomes and MAGs
aponsero/Microbiota_ExAnalysis
aponsero/quadram-institute-bioscience.github.io
Core Bioinformatics public page
aponsero/Resistome_AssemblyBased_Snakemake
Assembly-based pipeline for the annotation of Antibiotic resistance and mobilome genes.
aponsero/SRA_download
Script to download a list of runs from SRA. Pipeline for HPC with SLURM scheduler
aponsero/Taxonomy_Functional_HPCpipeline
Parrallel pipeline for HPC (Slurm scheduler) for the QC, taxonomic annotation and functional profiling of WGS metagenomes
aponsero/tidytuesday
Official repo for the #tidytuesday project
aponsero/transition_plot_function
Visualization of between-time point cluster transitions
aponsero/Tutorial_QC_TaxAnnotation
Simple Tutorial for performing QC and Taxonomic annotation on Whole Genome Shotgun on HPC system
aponsero/ViCAT_dev
Virus community assembly tool for HPC with SLURM scheduler
aponsero/Web-page-perso
simple web for professional portfolio
aponsero/Web-page-Val
professional portfolio for V. Ponsero