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added some rnabio links to cshl 2024 course lectures
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MariamKhanfar committed Dec 6, 2024
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28 changes: 14 additions & 14 deletions _posts/0009-04-01-Lectures.md
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Expand Up @@ -30,7 +30,7 @@ Organized by [Cold Spring Harbor Laboratory (CSHL)](http://www.cshl.edu/) - [Cou
* [Spatial Transcriptomics (Corinne Strawser)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/Spatial_Transcriptomics_Corinne_Strawser.pdf)
* [Ethics and Regulation of Genomic Research (Jessica Mozersky-virtual lecture)]()
* [An Overview of Bioinformatics (Felicia Gomez)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/An_Overview_of_Bioinformatics_Felicia_Gomez.pptx)
* [Introduction to Unix/Command Line Lab (Felicia Gomez)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0000-08-01-Unix)
* [Introduction to Unix/Command Line Lab (Felicia Gomez)](https://rnabio.org/module-00-setup/0000/08/01/Unix/)
* [Intro to cloud computing (My Hoang)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/RNASeq_Module0_CloudComputing.pdf)
* [More advanced command line lab and exercise (Jason Kunisaki)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/More_advanced_Command_Line_Lab_&_Exercise_Jason_Kunisaki.pptx)
* [File formats (Mariam Khanfar)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/File_Format_Mariam_Khanfar.pdf)
Expand All @@ -41,23 +41,23 @@ Organized by [Cold Spring Harbor Laboratory (CSHL)](http://www.cshl.edu/) - [Cou
* [Bioinformatics in Python (Jason Williams)](https://swcarpentry.github.io/python-novice-gapminder/)
* [DNA Alignment LAB (Mariam Khanfar)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/DNA_Alignment_Lab_Mariam_Khanfar.pdf)
* [Massively Parallel Assays (Justin Kinney)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/Massively_Parallel_Assays_Justin_Kinney.pdf)
* [Introduction to R (Katie Campbell)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0000-08-02-CSHL_Intro_to_R_programming)
* [Introduction to R (Katie Campbell)](https://rnabio.org/module-00-setup/0000/08/02/CSHL_Intro_to_R_programming/)
* [Introduction to IGV (Kartik Singhal)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/IGV_Tutorial_Kartik_Singhal.pdf)
* [Introduction to bulk RNA-sequencing (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/RNASeq_Module1_IntrotoRNA.pdf)
* [Environment and tool installation lab (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0000-09-01-Environment)
* [Reference, annotations, indexing, data and QC lab (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0001-02-01-Reference_Genomes)
* [Alignment lab (Arpad Danos)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0002-03-01-Alignment)
* [Environment and tool installation lab (Obi Griffith)](https://rnabio.org/module-00-setup/0000/09/01/Environment/)
* [Reference, annotations, indexing, data and QC lab (Obi Griffith)](https://rnabio.org/module-01-inputs/0001/02/01/Reference_Genomes/)
* [Alignment lab (Arpad Danos)](https://rnabio.org/module-02-alignment/0002/03/01/Alignment/)
* [Alignment and visualization concepts(Arpad Danos)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/mini/RNASeq_MiniLecture_02_01_Alignment.pdf)
* [Alignment visualization lab (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0002-05-01-AlignVis_Prep)
* [Post alignment QC lab (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0002-06-01-Alignment_QC)
* [Alignment visualization lab (Malachi Griffith)](https://rnabio.org/module-02-alignment/0002/05/01/AlignVis_Prep/)
* [Post alignment QC lab (Malachi Griffith)](https://rnabio.org/module-02-alignment/0002/06/01/Alignment_QC/)
* [Introduction to Expression and Differential Expression Analysis (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/RNASeq_Module3_AbundanceEstimation_DifferentialExpression.pdf)
* [Expression and Differential Expression analysis (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-01-01-Intro_to_Expression)
* [Expression analysis lab (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-02-01-Expression)
* [Differential expression lab (My Hoang)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-03-01-Differential_Expression-Ballgown)
* [Differential expression visualization and interpretation lab (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-04-01-DE_Visualization_Ballgown)
* [Differential expression pathway analysis lab (Obi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-05-01-DE_Pathway_Analysis)
* [Batch correction lab (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0003-06-01-Batch-Correction-Prep)
* [Alignment free analysis lab (Malachi Griffith)](https://github.com/griffithlab/rnabio.org/blob/master/posts/0004-02-01-Alignment_Free_Kallisto)
* [Expression and Differential Expression analysis (Obi Griffith)](https://rnabio.org/module-03-expression/0003/01/01/Intro_to_Expression/)
* [Expression analysis lab (Obi Griffith)](https://rnabio.org/module-03-expression/0003/02/01/Expression/)
* [Differential expression lab (My Hoang)](https://rnabio.org/module-03-expression/0003/03/01/Differential_Expression-Ballgown/)
* [Differential expression visualization and interpretation lab (Malachi Griffith)](https://rnabio.org/module-03-expression/0003/04/01/DE_Visualization_Ballgown/)
* [Differential expression pathway analysis lab (Obi Griffith)](https://rnabio.org/module-03-expression/0003/05/01/DE_Pathway_Analysis/)
* [Batch correction lab (Malachi Griffith)](https://rnabio.org/module-03-expression/0003/06/01/Batch-Correction-Prep/)
* [Alignment free analysis lab (Malachi Griffith)](https://rnabio.org/module-04-kallisto/0004/02/01/Alignment_Free_Kallisto/)
* [Introduction to epigenomics - ATAC, ChIPseq and Bisulfite approaches (Chris Miller)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/Introduction_to_Epigenomics_ATAC_ChIPseq_Bisulfite_Chris_Miller.pdf)
* [Epigenomics lab - Peak Calling (Kartik Singhal)](https://pmbio.org/module-10-appendix/0010/06/01/ChIP-seq_analysis/)
* [Long Read Sequencing (Chris Miller)](https://github.com/griffithlab/rnabio.org/blob/master/assets/lectures/cshl/2024/full/Long_Read_Sequencing_Chris_Miller.pdf)
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