Name: Andres S. Espindola
Type: User
Company: Oklahoma State University
Bio: Assistant Professor @ Institute for Biosecurity and Microbial Forensics @okstate
Twitter: andrese52
Location: Stillwater, OK
Blog: https://www.aespindola.com
Andres S. Espindola's Projects
Paper code: "These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure"
Config files for my GitHub profile.
A comparison of different Oxford Nanopore basecallers
Bash Oneliner learning station. This blog will focus on bash commands for parsing biological data, which are tsv files(tab-separated values); some of the commands are for Ubuntu system maintaining. I apologize that there won't be any citation of the code, but they are probably from dear Google and Stackoverflow. Not all the code here are oneliner (if the ';' counts..). English and bash are not my first language, so... correct me anytime, tks!!
Removes large or troublesome blobs like git-filter-branch does, but faster. And written in Scala
CAMISIM: Simulating metagenomes and microbial communities
Example of Singularity container
Docker file to install diamond and use it
Notebooks and code for the book "Introduction to Machine Learning with Python"
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
Google Chrome, Firefox, and Thunderbird extension that lets you write email in Markdown and render it before sending.
Meghna Hugo Template
Metagenomics Workshop Overview
Useful bash one-liners for bioinformatics.
customized rstudio in docker
Next generation sequencing reads de novo assembler.
A free, open source, Bootstrap admin theme created by Start Bootstrap
This is a set of basic datasets for a bioinformatics workshop organized in the Entomology and Plant Pathology Department at Oklahoma State University