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FNT 1.104

Introduction to Statistical Modeling

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This course is a hands-on introduction to building and interpreting statistical models in R, with a focus on real-world applications. We will cover key concepts in hypothesis testing, multiple linear regression, and logistic regression. You will learn how to choose appropriate modeling approaches, fit models using R, check assumptions, interpret results, and clearly communicate your findings. Each topic will include a brief introduction to foundational concepts, a demonstration of analysis in R, and guided practice through interactive coding exercises. Emphasis will be placed on using statistical modeling to answer research questions within reproducible workflows. By the end of the course, the goal is for you to be able to apply statistical modeling to your own data.

Preferred or Prerequisite Skills:
This course is recommended for students with some prior knowledge of R or programming in general.

Computer Requirement:
Participants are expected to provide their own laptops.

CB26033
Instructor

Layla Guyot

Layla Guyot is a data analyst, educator, and researcher, who joined the department of Statistics and Data Sciences at UT Austin in Fall 2020. She studied mathematics and physics as an undergraduate before completing an M.S. in Applied Probability and Statistics, just by chance. After gaining experience as a biostatistician, she combined her interests in teaching, statistics, and research to complete her Ph.D. in Mathematics Education at Texas State University. Layla has over a decade of experience coding in R and brings that expertise to explore real-world applications, emphasizing hands-on, active learning in her courses.

Status
Open
Location
Modality
In-Person
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Tue, May 26 - Fri, May 29
Start Date
9:00 am - 12:00 pm

See Fees and Registration

Introduction to RNA-Seq

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This four-day course provides an introduction to methods for analysis of RNA-seq data. A typical RNA-seq workflow will be featured, starting from quality assessment of raw data, mapping (bwa, kallisto), differential expression analysis (DESeq2), and downstream analyses and visualization. The course also describes analysis methods for dealing with single-cell RNA-Seq data. Participants will gain hands-on experience using these tools in a Linux command line environment.

Preferred or Prerequisite Skills:
None

Computer Requirement:
Students should have their own laptop computer. UT EID is required for wireless access on campus. Please be sure you know both your UT EID when you come to class. To obtain a UT EID, go here.

CB26034
Instructor

Dhivya Arasappan (Co-Director, Bioinformatics Consulting Group, CBRS)

Dhivya Arasappan has over 15 years experience analyzing NGS data from multiple platforms. Her areas of expertise include RNA-Seq analysis (specifically involving large-scale brain expression datasets and coexpression network analysis), de novo genome assembly (particularly using hybrid sequencing data) and benchmarking of bioinformatics tools. She is the research educator for the Big Data in Biology Freshman Research Initiative stream.

Status
Open
Location
Modality
Hybrid, but in-person encouraged
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Tue, May 26 - Fri, May 29
Start Date
1:00 pm - 4:00 pm

See Fees and Registration

Introduction to Biocomputing: Working in Unix and R

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This course will cover the Unix command line and data analysis in R within the context of biocomputing. We will start at the Unix command line and cover command line tools for manipulating data files, before transitioning to RStudio to cover introductory topics and engage with data analysis methods in R. The course will finish up with tidyverse tools and methods for visualizing data using ggplot2.

Preferred or Prerequisite Skills:
None

Computer Requirement:
Students should have their own laptop computer. A UT EID is required for wireless access on campus. Please be sure you know both your UT EID when you come to class. To obtain a UT EID, go here.

CB26032
Instructor

Matt Bramble (Bioinformatician, Bioinformatics Consulting Group, CBRS)

Matt Bramble joined the CBRS team after working at MD Anderson Cancer Center analyzing a wide range of NGS data in epigenomics. His areas of expertise include: Hi-C (chromatin conformation) analysis, mouse somatic variant analysis, and single cell RNAseq analysis. He has 10 years of experience with R and Python, and Master’s degrees from UT in Molecular Biology and Statistics.

Status
Open
Location
Modality
Hybrid, but in-person encouraged
Course Closes
Wed, May 27
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Mon, Jun 1 - Fri, Jun 5
Start Date
9:00 am - 12:00 pm

See Fees and Registration

Introduction to Python

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This five-day course will introduce students to basic concepts in programming using the Python language, establishing a foundation for scientific computing. Trainees will learn introductory topics such as data structures, control flow, functions, file input/output, and data parsing. The class will work with SciPy libraries like Pandas. Trainees will have full access to the teacher’s course book and course content (datasets, scripts, and jupyter notebooks).

Preferred or Prerequisite Skills:
None

Computer Requirement:
This class is offered in-person. Students must provide laptops able to connect to the internet, and a Firefox or Chrome browser. UT EID is required for wireless access. Please be sure you know your UT EID when you come to class. To obtain a UT EID, go here.

CB26035
Instructor

James Derry (Senior Systems Administrator)

James Derry is a senior systems administrator and has taught a semester-long introduction to programming course each long semester for the last 14 years.

Status
Open
Location
Modality
In-person
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Mon, Jun 1 - Fri, Jun 5
Start Date
1:00 pm - 4:00 pm

See Fees and Registration

Introduction to Core NGS Concepts and Tools

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This five-day course provides an introduction to the concepts and vocabulary of Next Generation Sequencing (NGS) with an emphasis on common protocols, tools and file formats used in NGS data analysis. Subjects covered include quality assessment and manipulation of raw NGS sequences (FastQC, cutadapt), read mapping (bwa, bowtie2), the Sequence Alignment Map (SAM) format, and tools for manipulating BAM files (samtools, bedtools). Participants will gain hands-on experience using these and other NGS tools in the Linux command line environment at TACC, as well as exposure to the many bioinformatics resources TACC makes available.

Preferred or Prerequisite Skills:
None. UNIX/Linux command line experience is not required, and becoming familiar with how to use the command line for NGS analysis will be a major focus of this course. However, to get a head start on developing this important skill you can look through our Intro to Unix/Linux workshop wiki, and our Intermediate Unix/Linux workshop wiki.

Computer Requirement:
In order to participate fully in the hands-on exercises students should have their own laptop computer with an SSH client program. Macs have SSH available in the Terminal application. Recent Windows versions have an SSH client built into its PowerShell and Command Prompt programs, or PuTTy can be used if SSH is not available. A TACC Account and UT EID are also required. To obtain a UT EID, go here. To sign up for a TACC account, go here.

CB26036
Instructor

Anna Battenhouse (Associate Research Scientist and Bioinformatics Consultant, CBRS)

Anna Battenhouse is a research scientist in the lab of Dr. Edward Marcotte, is a member of UT Austin’s Bioinformatics Consulting Group, and leads the Biomedical Research Computing Facility’s mission to support IT and computational needs of the biological sciences community. She has extensive experience working with NGS data over the last 15+ years, and develops and maintains NGS analysis scripts for UT’s BioITeam. Anna received a B.A. in English Literature from Carleton College in 1978. After a long career in commercial software development Anna began her “retirement career” at UT Austin in 2007, and obtained a B.S. in Biochemistry in 2013.

Status
Open
Location
Modality
Hybrid, but in-person recommended
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Mon, Jun 8 - Fri, Jun 12
Start Date
9:00 am - 12:30 pm

See Fees and Registration

Principles of Machine Learning for Bioinformatics

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This four-day course will introduce a selection of machine learning methods used in bioinformatic analyses with a focus on RNA-seq gene expression data. We will cover unsupervised learning, dimensionality reduction and clustering; feature selection and extraction; and supervised learning methods for classification (e.g., random forests, SVM, LDA, kNN, etc.) and regression (with an emphasis on regularization methods appropriate for high-dimensional problems). Participants will have the opportunity to apply these methods as implemented in R and python to publicly available data.

Preferred or Prerequisite Skills:
This course is recommended for students with some prior knowledge of either R or python. Participants are expected to provide their own laptops with recent versions of R and/or python installed. Students will be instructed to download several free software packages (including R packages and python libraries including pandas and sklearn).

Computer Requirement:
Students should have their own laptop computer. UT EID is required for wireless access. Please be sure you know your UT EID when you come to class. To obtain a UT EID, go here.

CB26037
Instructor

Dennis Wylie (Co-Director, Bioinformatics Consulting Group, CBRS)

Dennis Wylie joined the bioinformatics group in 2015. He has experience in NGS data analysis including variant calling and RNA-Seq-based biomarker discovery and predictive modeling (classification, regression, etc.). Prior to UT, he earned a PhD in Biophysics from UC Berkeley applying stochastic simulation methods in immunology, did postdoctoral work modeling the transmission of infectious disease, and spent six years as a bioinformatician in industry.

Status
Open
Location
Modality
Hybrid
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Summer 2026
Course Type
Big Data in Biology Summer School
Mon, Jun 15 - Thu, Jun 18
Start Date
9:00 am - 12:00 pm

$50

Practical Guide for Designing Genetically Engineered Mice

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

The class will cover strategies for designing genetically engineered mice. The allele types to be covered include null alleles, point mutations, conditional alleles, and reporter knock-ins.

CB26031
Instructor

William Shawlot (Director, Mouse Genetic Engineering Facility, CBRS)

Bill Shawlot received his Ph.D. from the Baylor College of Medicine and did his post-doctoral training with Richard Behringer at the M.D. Anderson Cancer Center. He was an Assistant Professor in the Department of Genetics, Cell Biology, and Development at the University of Minnesota, studying mammalian embryogenesis before joining the Texas A&M Institute for Genomic Medicine (TIGM) to help lead TIGM’s efforts in the International Knockout Mouse Consortium program. He has over 30 years of experience in the transgenic mouse field and serves on the External Advisory Committee for the NIH’s Mutant Mouse Resource and Research Center program.

Status
Open
Location
Modality
In-person
Course Closes
Wed, Apr 29
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Spring 2026
Course Type
Short Courses in Bioinformatics and Biocomputing
Mon, May 4
Start Date
9:00 am - 12:00 pm

Free

Advanced Bash Scripting

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This is a two-part course, with substantial hands-on experience in a shared computing environment. The course will cover advanced topics in writing Bash shell scripts, providing tips, examples and best practices for creating robust “pipeline scripts” that execute multiple processing steps. Topics include defining functions, argument processing and defaulting, error checking, effective use of utilities such as awk and grep, as well as subtleties of UNIX streams and text manipulation.

Prerequisites:
Intermediate Unix or equivalent experience. Students wishing to participate in the hands-on portions should bring their own laptop.

CB26024
Instructor

Anna Battenhouse (Associate Research Scientist and Bioinformatics Consultant, CBRS)

Anna Battenhouse is a research scientist in the lab of Dr. Edward Marcotte, is a member of UT Austin’s Bioinformatics Consulting Group, and leads the Biomedical Research Computing Facility’s mission to support IT and computational needs of the biological sciences community. She has extensive experience working with NGS data over the last 15+ years, and develops and maintains NGS analysis scripts for UT’s BioITeam. Anna received a B.A. in English Literature from Carleton College in 1978. After a long career in commercial software development Anna began her “retirement career” at UT Austin in 2007, and obtained a B.S. in Biochemistry in 2013.

Status
Open
Location
Modality
In-person. Zoom access available upon request.
Course Closes
Fri, May 01
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Spring 2026
Course Type
Short Courses in Bioinformatics and Biocomputing
Wed, May 06 and Fri, May 08
Start Date
9:00 am - 12:00 pm

$50 (includes both days)

Intermediate Unix

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This is a two-part course, with substantial hands-on practice in a shared computing environment. Topics will build on those in the introductory course, including more on the filesystem, the Bash shell, and text processing on the command line. The course will emphasize manipulating text using standard Linux utilities and stringing commands together using pipes. We’ll also introduce some of the powerful Linux utilities such as cut, sort, grep and awk, with the goal of continuing the climb up the steep Linux learning curve.

Prerequisites:
Introduction to Unix or equivalent experience. Students wishing to participate in the hands-on portions should bring their own laptop.

CB26023
Instructor

Anna Battenhouse (Associate Research Scientist and Bioinformatics Consultant, CBRS)

Anna Battenhouse is a research scientist in the lab of Dr. Edward Marcotte, is a member of UT Austin’s Bioinformatics Consulting Group, and leads the Biomedical Research Computing Facility’s mission to support IT and computational needs of the biological sciences community. She has extensive experience working with NGS data over the last 15+ years, and develops and maintains NGS analysis scripts for UT’s BioITeam. Anna received a B.A. in English Literature from Carleton College in 1978. After a long career in commercial software development Anna began her “retirement career” at UT Austin in 2007, and obtained a B.S. in Biochemistry in 2013.

Status
Open
Location
Modality
In-person. Zoom access available upon request.
Course Closes
Fri, Apr 24
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Spring 2026
Course Type
Short Courses in Bioinformatics and Biocomputing
Wed, Apr 29 and Fri, May 01
Start Date
9:00 am - 12:00 pm

$50 (includes both days)

Introduction to Unix

Member for

2 years 7 months
Full name
Gary Chiang
Submitted by Gary Chiang on

This is a two-part course, with substantial hands-on practice in a shared computing environment. Participants will learn the basics of using UNIX from the command line. Introductory topics include manipulating text files using standard UNIX utilities, how to string utilities together, and how to output the results to files. The goal of the course is to develop some basic comfort at the command line, get a sense of what’s possible, and learn how to find help.

Prerequisites:
Students wishing to participate in the hands-on portions should bring their own laptop.

CB26022
Instructor

Anna Battenhouse (Associate Research Scientist and Bioinformatics Consultant, CBRS)

Anna Battenhouse is a research scientist in the lab of Dr. Edward Marcotte, is a member of UT Austin’s Bioinformatics Consulting Group, and leads the Biomedical Research Computing Facility’s mission to support IT and computational needs of the biological sciences community. She has extensive experience working with NGS data over the last 15+ years, and develops and maintains NGS analysis scripts for UT’s BioITeam. Anna received a B.A. in English Literature from Carleton College in 1978. After a long career in commercial software development Anna began her “retirement career” at UT Austin in 2007, and obtained a B.S. in Biochemistry in 2013.

Status
Open
Location
Modality
In-person. Zoom access available upon request.
Course Closes
Fri, Apr 17
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Spring 2026
Course Type
Short Courses in Bioinformatics and Biocomputing
Wed, Apr 22 and Fri, April 24
Start Date
9:00 am - 12:00 pm

$50 (includes both days)

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