Jaime David Ortiz P.'s repositories
alfie
A neural network for alignment-free, kingdom-level classification of eDNA
applied-computational-genomics
Applied Computational Genomics Course at UU: Spring 2020
ComputingFundamentals
The fundamentals of command-line computing
datasciencecoursera
Repository created for the purpose of first course project
ExData_Plotting1
Plotting Assignment 1 for Exploratory Data Analysis
GeneTreeInference
Maximum likelihood and Bayesian inference of gene trees
Getting-and-Cleaning-Data-Project
Repository for the final project in the Getting and Cleaning Data course
kraken2
The second version of the Kraken taxonomic sequence classification system
metabarcoding-primer-portfolio
Evaluation of 22 primer sets for metabarcoding marine and freshwater fishes, mostly
MetaWorks
MetaWorks is a flexible multi-marker metabarcode pipeline for processing paired-end Illumina reads from raw fastq.gz files to taxonomic assignments.
PrimerMiner
R mased batch sequence downloader, with primer development and in silico evaluation capabilities
ProgrammingAssignment2
Repository for Programming Assignment 2 for R Programming on Coursera
RepData_PeerAssessment1
Peer Assessment 1 for Reproducible Research
SLIM
A web app for environmental DNA metabarcoding analysis
Targeted_Literature_Reviews_via_webscraping
Web scraping to get articles for a given query. It returns an spreadsheet with titles, abstracts, doi and references of the article
test-repo
first-repository coursera
vsearch
Versatile open-source tool for microbiome analysis
zotrm
Tool to sync Zotero papers to the reMarkable tablet.