Differences

This shows you the differences between two versions of the page.

--- mkatari-bioinformatics-august-2013 [2013/08/08 15:12] – created aorth
+++ mkatari-bioinformatics-august-2013 [2013/08/16 17:38] – mkatari
@@ Line 1: / Line 1: @@
-====== w00t ======
+====== Manny's Bioinformatics Workshop ======
 Manny's workshop:
-  * [[mkatari-bioinformatics-august-2013-day1]]
+  * Introduction to Linux -- [[https://docs.google.com/file/d/0B172nc4dAaaOOUdvVlowZHo4R0E/edit?usp=sharing|ppt]] -- [[mkatari-bioinformatics-august-2013-introLinuxNotes|Linux notes]]
+  * Introduction to Sequence Technology -- [[https://docs.google.com/file/d/0B172nc4dAaaOVGZIQXRWUlRmU1E/edit?usp=sharing|ppt]] -- [[http://hannonlab.cshl.edu/fastx_toolkit/commandline.html|Fastx toolkit]] -- [[http://www.bioinformatics.babraham.ac.uk/projects/fastqc/|Fastqc]]
+  * Introduction to Sequence Alignment -- [[https://docs.google.com/file/d/0B172nc4dAaaOcHlWZHM5WUw5SFE/edit?usp=sharing|ppt]] -- [[mkatari-bioinformatics-august-2013-BlastNotes|Blast notes]] -- [[http://samtools.sourceforge.net/samtools.shtml|Samtools]]
+  * Introduction to Mapping and Sequence Assembly -- [[https://docs.google.com/file/d/0B172nc4dAaaOREpEdVZtSkw5dGs/edit?usp=sharing|ppt]] -- [[http://www.ebi.ac.uk/~zerbino/velvet/Manual.pdf|Velvet Documentation]]
+  * Introduction to RNA-seq -- [[https://docs.google.com/file/d/0B172nc4dAaaONnVoWWJJdWlkQUU/edit?usp=sharing|ppt]] -- [[http://bowtie-bio.sourceforge.net/bowtie2/manual.shtml|Bowtie2]] -- [[http://tophat.cbcb.umd.edu/manual.shtml|Tophat]] -- [[http://cufflinks.cbcb.umd.edu/manual.html|Cufflinks]] -- [[http://cufflinks.cbcb.umd.edu/manual.html#cuffdiff|CuffDiff]]
+Manny's R Lectures:
+  * R Objects and Read/Write Files -- [[https://docs.google.com/file/d/0B172nc4dAaaOZENzZGFNVEp5WTA/edit?usp=sharing|ppt]] -- [[https://docs.google.com/file/d/0B172nc4dAaaOS29XcEJyU0h0SlU/edit?usp=sharing|Exercise 1]] -- [[https://docs.google.com/file/d/0B172nc4dAaaOTElDZkIwTUdqWU0/edit?usp=sharing|example.txt]] -- [[https://docs.google.com/file/d/0B172nc4dAaaOemFPcWprQm9IeWc/edit?usp=sharing|example.csv]]
+  * Plotting and Writing Functions in R -- [[https://docs.google.com/file/d/0B172nc4dAaaOZ1ZoekZwcWZtT28/edit?usp=sharing|ppt]] -- [[https://docs.google.com/file/d/0B172nc4dAaaOSS1hOFBxMWk0eEE/edit?usp=sharing|breast cancer dataset]]
+  * Inferential Statistics using R -- [[https://docs.google.com/file/d/0B172nc4dAaaOQTFjWDJJWGxLUWM/edit?usp=sharing|ppt]] -- [[https://docs.google.com/file/d/0B172nc4dAaaONlZ4QXByRThPNXM/edit?usp=sharing|Normalized Data]] -- [[mkatari-bioinformatics-august-2013-volcano-plot|Volcano plot]]