Keck School Events

Journal & Coding Club: Cellular, Molecular & Computational Tools for Insights & Analysis for Stem Cell Research

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Date/Time
Date(s) - July 1, 2020
6:00 pm - 9:00 pm


For information on joining the Journal & Coding Club or to subscribe to the listserv, please contact Josh Berlind at berlind@usc.edu. For all other issues or technical help, please contact Nils Lindström (Nils.Lindstrom@med.usc.edu) or Amanda S. Meyer (meyeras@usc.edu).

Wednesday, April 1

11am-noon Recent Advances in the scRNAseq World (Paper), instructor: Nils Lindstrom

2-4pm Intro to Programming in R. What is Programming? R as a Language, instructor: Amanda Meyer

Wednesday, April 8

11am-noon Good Use of Seurat (Paper), instructor: Nils Lindstrom

2-4pm A Detailed Seurat Tutorial, instructor: Nils Lindstrom

Wednesday, April 15

11am-noon Journal club introducing STAR for Alignment (Paper)

2-4pm Intro to Programming in R: Handling Objects, instructor: Amanda Meyer

Wednesday, April 22

11am-noon Cell Ranger Workshop: Alignment of 10xGenomics Data, instructor: Andrew Ransick

2-4pm How to Download Data from NCBI, How to Align using STAR, instructor: Sunghyung Kim

Wednesday, April 29

11am-noon Journal club introducing Cut&Run and Cut&Tag (Paper), instructors: Litao Tao and Emily Wang

2-4pm Intro to Programming in R: Notation and Modifying Values, instructor: Amanda Meyer

Wednesday, May 6

11am-noon DESeq workshop, instructors: Sunghyung Kim and Amanda Meyer

2-4pm A Cut&Run analysis, instructors: Litao Tao and Emily Wang

Wednesday, May 13

11am-noon Journal club introducing SnapATAC (Paper)

2-4pm Intro to Programming in R: Programs and Loops, instructor: Amanda Meyer

Wednesday, May 20

11am-12pm Journal club introducing spatial transcriptomics in the gastruloid (Paper)

2-4pm Intro to analysis of snATAC using SnapATAC, instructor: Ted Tseng

Wednesday, May 27

11am-noon Journal club introducing further concepts of spatial transcriptomics (Paper), instructor: Nils Lindstrom

2-4pm Intro to Programming in R: S3, S4, S5 Class Objects, instructor: Amanda Meyer

Wednesday, June 3

11-noon Journal club introducing SCENIC for scRNA-seq, instructor: Talon Trecek

2-4pm SCENIC tutorial: building modules in scRNA-seq, instructor: Talon Trecek

Wednesday, June 10

11am-noon Spatial Genomics: CITEseq (Paper)

2-4pm Intro to Programming in R: Data Visualization with Ggplot2, instructor: Amanda Meyer

Wednesday, June 17

11am-noon Assessing timing from scRNAseq (Paper), instructor: Nils Lindstrom

2-4pm Basic Python for Velocity, instructor: Litao Tao

Wednesday, June 24

11am-noon Assessing and validating timing (Paper), instructor: Nils Lindstrom

2-4pm Intro to Programming in R: Data Visualization, instructor: Amanda Meyer

Wednesday, July 1

10am-noon Velocity workshop, instructor: Litao Tao

2-4pm Intro to Programming in R: Data Transformation, Tidy, and Factors, instructor: Amanda Meyer

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