Lecture for 4/21/2014
Topics:
LRT, supertrees vs supermatrix, gene families, and sign-up sheet for student presentations.
powerpoint slides are at MCB5472_lecture_04_21_2014.pptx
pdf summary at MCB5472_lecture_04_21_2014.pdf
Computerlab Exercise #11
Lecture #10 from 4/14/2014 on types of selection
Powerpoint slides are at MCB5472_lecture_04_14_2014.pptx
PDF of overview slides are at MCB5472_lecture_04_14_2014.pdf
Computer lab exercise #10
Instructions for today’s lab are at MCB5472_computer_lab_10.
Lecture #9 04/07/2014 and homework assignment for 4/14
Topic: extracting phylogenetic information, mechanisms of evolution, and types of selection
pptx slides for lecture #9 are at MCB5472_lecture_04_7_2014.
pdf summary slides are at MCB5472_lecture_04_7_2014
Computerlab exercises #9
Lecture #8 03/31/2014 and homework assignment for 4/7
pptx slides for lecture are at MCB5472_lecture_03_31_2014 (links only work, if you are in presentation mode)
Slides of what we actually covered are at MCB5472_lecture_03_31_2014 short
pdf summary is at MCB5472_lecture_03_31_2014.pptx
Homework for next week is on slide 73 or at Homework for 4_6
Sample scripts for oligos scanning are at Homework_for_3_31 :
tetra.pl: scans genome and lists tetramers (both to table and screen)
nmerfreq.pl: scans genome and lists n-mers (n-mer size specified in script)
nmerfreqMod.pl: scans genome and lists n-mers and calls an R-script that produces a histogram
histogramScript_pdf.R: R script that produces histogram from a list of numbers and also compares the observed frequency to the frequency expected under a normal distribution. Documentation in histogramScript.R.read_me.doc
Computer Lab #8
Slides with comments and instructions in powerpoint format are at MCB5472_lecture_3_26 and in pdf format (some link will not work) are at MCB5472_lecture_3_26.
Please send scripts and figures for the in class assignment (ZIP archive of script and figures as jpg, png or excel file) to jpgogarten@gmail.com. Please indicate the genome you used to create the figures.