Title: Introduction to RNA Seq Course  
Owner: Dhivya Arasappan
Creator: Dhivya Arasappan May 20, 2015
Last Changed by: Dhivya Arasappan Jun 12, 2025
Tiny Link: (useful for email) https://cloud.wikis.utexas.edu/wiki/x/8CLYAg
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Core NGS Tools (4)
    Page: 2020 Core NGS Resources
    Page: 2021 Core NGS Resources
    Page: 2022 Core NGS Resources
    Page: Core NGS Resources
Bioinformatics Team (BioITeam) at the University of Texas (29)
    Page: Assessing Mapping Results I
    Page: Assessing Mappings Results II
    Page: Clustering using WGCNA
    Page: Day 1 Take Away Points
    Page: Day 2 Take Away Points
    Page: Day 3 Take Away Points
    Page: Day 3 take aways
    Page: Dhivya's suggestions for QC cutoffs
    Page: FASTQ Manipulation Tools
    Page: GO Enrichment
    Page: Logistics
    Page: Logistics - Day 2
    Page: Logistics- Day 4
    Page: Logistics-Day 1
    Page: Lonestar6 TACC/Unix Exercise With Answers
    Page: Mapping with HISAT2
    Page: Mapping with STAR
    Page: Mapping with Tophat Exercises
    Page: MultiQC
    Page: Plotting DESEQ2 Results
    Page: Pseudomapping with Kallisto
    Page: RNA-Seq Approaches
    Page: Running the new tuxedo suite
    Page: Stampede2 TACC/Unix Exercise
    Page: Testing for Differential Expression
    Page: The Quickest Unix Refresher ever
    Page: Using the Lonestar5 Cluster
    Page: Visualization using Integrated Genome Viewer (IGV)
    Page: Where to get publicly available RNA-Seq data
Hierarchy
Children (44)
    Page: Plotting DESEQ2 Results
    Page: Gene Counting
    Page: Logistics - Day 2
    Page: Logistics
    Page: Logistics- Day 4
    Page: Single Cell RNA-Seq Script and Data
    Page: Mapping with STAR
    Page: Clustering using WGCNA
    Page: GO Enrichment
    Page: Pseudomapping with Kallisto
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Time Editor  
Jun 12, 2025 05:41 Dhivya Arasappan View Changes
Jun 11, 2025 12:43 Dhivya Arasappan View Changes
Jun 09, 2025 11:01 Dhivya Arasappan View Changes
Jun 09, 2025 10:59 Dhivya Arasappan View Changes
Version published after converting to the new editor
Jun 09, 2025 10:59 Dhivya Arasappan  
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External Links (15)
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    https://www.tacc.utexas.edu/
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    mailto:mbramble@gmail.com
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    mailto:darasappan@austin.utexas.edu
Bioinformatics Team (BioITeam) at the University of Texas (35)     Page: Assessing Mapping Results I
    Page: Gene Counting
    Page: Using The Lonestar6 Cluster
    Page: Mapping with HISAT2
    Page: Assessing Mappings Results II
    Page: Dhivya's suggestions for QC cutoffs
    Page: Single Cell RNA-Seq Script and Data
    Page: Lonestar6 Directories
    Page: Where to get publicly available RNA-Seq data
    Page: Logistics
    Page: Clustering using WGCNA
    Page: Evaluating your raw data
    Page: Day 1 Take Away Points
    Page: GO Enrichment
    Page: Mapping with BWA
    Page: Logistics- Day 4
    Page: Day 3 Take Away Points
    Page: Mapping with STAR
    Page: Day 2 Take Away Points
    Page: Logistics-Day 1
    Page: The Quickest Unix Refresher ever
    Page: Submitting Jobs to Lonestar6
    Page: Day 4 Take Away Points
    Page: Testing for Differential Expression
    Page: Installing Tools on a Server
    Page: Pathway Analysis
    Page: Practice time/Bring your own RNA-Seq Data
    Page: Pseudomapping with Kallisto
    Page: Lonestar6 TACC/Unix Exercise
    Page: Plotting DESEQ2 Results
    Page: Logistics - Day 2
    Page: Visualization using Integrated Genome Viewer (IGV)
    Page: TACC Overview
    Page: RNA-Seq Approaches
    Page: Gene Set Enrichment Analysis (GSEA)