Git or Github

Lance Santana

Consulting Drop-In Hours: By appointment only

Consulting Areas: APIs, ArcGIS Desktop - Online or Pro, Bayesian Methods, Cluster Analysis, Data Visualization, Databases and SQL, Excel, Git or GitHub, Java, Machine Learning, Means Tests, Natural Language Processing (NLP), Python, Qualtrics, R, Regression Analysis, Research Planning, RStudio, Software Output Interpretation, SQL, Survey Design, Survey Sampling, Tableau, Text Analysis

Quick-tip: the fastest way to speak to a consultant is to first ...

Carl Illustrisimo

Consulting Drop-In Hours: By appointment only

Consulting Areas: Bash or Command Line, Cluster Analysis, Data Sources, Data Visualization, Digital Humanities, Excel, Git or GitHub, Javascript, LaTeX, Machine Learning, Natural Language Processing (NLP), Python, Regression Analysis, RStudio, SQL, Text Analysis

Quick-tip: the fastest way to speak to a consultant is to first ...

Evan Kartheiser

Consulting Drop-In Hours: By appointment only

Consulting Areas: ArcGIS Desktop - Online or Pro, Data Visualization, Geospatial Data: Maps and Spatial Analysis, Git or GitHub, Google Earth Engine, HTML / CSS, Javascript, Python, QGIS, R, Regression Analysis, SQL, Spatial Statistics, Tableau, Time Series

Quick-tip: the fastest way to speak to a consultant is to first ...

Alyssa Heinze

Consulting Drop-In Hours: By appointment only

Consulting Areas: Causal Inference, Data Visualization, Experimental Design, Focus Groups and Interviews, Git or GitHub, LaTeX, Machine Learning, Meta-Analysis, Mixed Methods, Qualitative Methods, Qualtrics, R, Regression Analysis, Research Design, RStudio, STATA, Survey Design, Text Analysis

Quick-tip: the fastest way to speak to a consultant is to first ...

Aidan Lee

Consulting Drop-In Hours: By appointment only

Consulting Areas: ArcGIS Desktop - Online or Pro, Bayesian Methods, Causal Inference, Cluster Analysis, Data Sources, Data Visualization, Databases and SQL, Digital Health, Excel, Experimental Design, Geospatial Data: Maps and Spatial Analysis, Git or GitHub, LaTeX, Machine Learning, Means Tests, Mixed Methods, Natural Language Processing (NLP), OCR, Python, Qualtrics, R, Regression Analysis, Research Design, Research Planning, RStudio, RStudio Cloud, SAS, Software Output Interpretation, SPSS, SQL,...

Vy Ngo Thai

Consulting Drop-In Hours: By appointment only

Consulting Areas: Python, SQL, Javascript, HTML / CSS, APIs, Data Visualization, Databases and SQL, Digital Humanities, Web Scraping, Software Development, Git or GitHub, Tableau

Quick-tip: the fastest way to speak to a consultant is to first submit a request...

Jonathan Pedroza (JP)

Postdoctoral Scholar
Berkeley School of Education

JP is a postdoctoral scholar in Data Science Education. He received his PhD in Prevention Science from the University of Oregon. His research interests include: examining risk and protective factors of health disparities in Latina/o/x/e populations and investigating educational outcomes in underrepresented student populations. JP uses a social-ecological framework to address his research interests.

Previously, he has served as an adjunct lecturer at Cal Poly Pomona teaching research methods and statistics, as well as a data scientist at the University of Kansas' Accessible Teaching...

John Louis-Strakes Lopez

Postdoctoral Scholar
Berkeley School of Education

John Louis-Strakes Lopez is a Data Science Education postdoctoral scholar. He recently received his PhD in Education from University of Caifornia, Irvine. John’s work looks at student epistemological development within data science contexts. He is also interested in designing -and studying artificial intelligence and playful learning technologies for learning. John serves as a co-chair for the International Learning Sciences Student Association.

Beyond work, you will find John reading at a local coffee shop or eating a warm bowl of Pho.

In Silico Approach to Mining Viral Sequences from Bulk RNA-Seq Data

October 28, 2025
Carly Karrick
by Carly Karrick. Viruses play important roles in evolution and influence ecosystems and host health. However, isolating and studying them can be difficult. In lieu of using resource-intensive methods to concentrate viruses into a “virome,” bulk sequencing methods include data from all biological entities present in a sample. In this tutorial, we explore an approach to mine viral sequences from publicly available bulk RNA-Seq data. The output from this analysis paves the way for future statistical analyses comparing viral communities in different contexts. This approach can be applied to other datasets, including studies of human health.

Pratik Sachdeva, Ph.D.

Research Scientist

I am a Research and Data Scientist in the D-Lab at UC Berkeley. My research focuses on the societal impacts of machine learning models, with an emphasis on understanding the norms and values elicited from large language models. I also lead and support a range of social science projects, spanning hate speech detection, education, and computational humanities. Lastly, I help provide D-Lab's core instructional and consulting services.

I previously obtained my PhD in the Physics Department at UC Berkeley, conducting research in...