sidebar

toc

About
Introduction Syllabus Schedule Internal Resources Installation
Slides
Course Introduction (S1) Genome Basics (S2) Databases and Software (S3) Git and GitHub (S4) Linux Cluster Basics (S5) DNA Sequencing (S6) Introduction to R (S7) Sequence Alignments (S8) Programming in R (S9) Multiple Alignments (S10) Short Read Alignments (S11) R on HPC (S12) NGS Analysis Basics (S13) Gene Expression Analysis (S14) NGS Workflows (S15) ChIP-Seq Overview (S16) Enrichment Analysis (S17) Cluster Analysis (S18) Project Data (S19) Graphics in R (S20) Building R Packages (S21) dplyr, tidyr and SQLite (S22) Workflow Review (S23) Final Discussion (S24) Additional Slide Shows (S25)
Tutorials
GitHub Introduction (T1) Linux and HPCC Cluster (T2) Introduction to R (T3) Programming in R (T4) Parallel R (T5) NGS Analysis Basics (T6) Workflows (T7) RNA-Seq Workflow (T8) ChIP-Seq Workflow (T9) scRNA-Seq Embedding Methods (T10) R Markdown (T11) Functional Enrichment Analysis (T12) Cluster Analysis and Data Mining (T13) Project Data (T14) Graphics and Visualization (T15) Shiny Apps (T16) Building R Packages (T17) dplyr, tidyr and SQLite (T18) Automate CWL Creation (T19)
Assignments
Homework HW1: Intro & GitHub HW2: Linux & HPC HW3: R Basics HW4: Alignments HW5: R Programming HW6: NGS Analysis Basics HW7: RNA-Seq Analysis HW8: R Markdown Projects Overview of Projects RNA-Seq Aligners DEG Methods DEXseq Analysis Cluster Analysis scRNA-Seq Embedding ChIP-Seq Peak Callers Functional Enrichment Motif Enrichment* Genome Graphics* Drug-target Analysis lncRNA Discovery Project Data Presentations Paper Presentations
Links
Piazza GitHub Classroom GitHub Repo Bioconductor Hugo, Docsy & R
News

Slides

Course Introduction Genome Basics Databases and Software Git and GitHub Linux and Cluster Basics DNA Sequencing Introduction to R Sequence Alignments Programming in R Multiple Alignments Short Read Alignments R on HPC NGS Analysis Basics Analysis of Gene Expression Data Introduction to NGS Workflows ChIP-Seq Overview Functional Enrichment Analysis Cluster Analysis Project Data R Graphics R packages dplyr, tidyr and SQLite Review of Data Analysis Workflows Final Discussion Additional Slide Shows

View source code Edit this page Create child page Create documentation issue Create project issue

Slides
DNA Sequencing

Sequencing Technologies

1 minute read

Last modified 2023-04-10: slides (babf2d600)

© 2023 The GEN242 Instructors All Rights Reserved Privacy Policy