Discover @stenglein-lab Open Source projects

@stenglein-lab

stenglein-lab

Stars
35
Global Rank 437,550 (Top 16 %)
Followers 26
Following 2
Registered about 10 years ago
Most used languages

Perl
33.3 %

HTML
22.2 %

R
11.1 %

Nextflow 11.1 %

Shell
11.1 %

Groovy
11.1 %
Location 🇺🇸 United States
Country Total Rank 82,464
Country Ranking

Nextflow 64

Groovy
866

Perl
930

R
3,259

viral_variant_caller

A nextflow pipeline to call single nucleotide and structural variants in viral populations

stenglein_lab_scripts

Stenglein Lab Scripts

taxonomy_pipeline

A nextflow pipeline to taxonomically assess the sequences in an NGS dataset, with a focus on identifying and characterizing virus sequences

2017_GDW

Documents and exercises used in the Genomics of Disease in Wildlife Workshop June 2017

tick_surveillance

Bioinformatics pipeline for analysis of amplicon sequencing of tick-associated microbes

bunya_dvg_analyses

Analyses of DVG forms in ~100 bunyavirus datasets

highlight_residues_on_spike_structure

Highlight structures on SARS-CoV-2 spike structure using UCSF chimera

nextflow_template

A simple nextflow template - can be forked to initiate a new nextflow workflow

MIP_280A4_Fall_2021

Course Material for MIP_280A4, Computational Microbiology, for Fall 2021

active_learning_exercises

These are mostly paper-based active learning exercises developed to teach computational biology concepts in courses and workshops.

2022_Todos_Santos

Training material from the 2022 Todos Santos Genomics and Bioinformatics workshop.

lab_freezer_monitor

Simple lab freezer monitor using raspberry pis and a web interface

btv_segment_table

A pipeline to quantify #s of reads mapping to bluetongue virus (BTV) segments in a co-infection/reassortment experiment

2022_Annual_Review_of_Virology

This repository contains code used to perform analyses described in a 2022 Annual Review of Virology review article.