COSAM » Bioinformatics Bootcamp » AU Bioinformatics Bootcamp Schedule 2017

Auburn University Bioinformatics Bootcamp 2017
June 5th - 9th, 2017


Instructors: Les Goertzen, Scott Santos, Ken Halanych
Laurie Stevison, Rita Graze, & Jamie Oaks
Assistants: Nicole Garrison & Nathan Hall


This tentative schedule will be adjusted as needed.

Sunday, June 4 - Arrive in Auburn

Monday, June 5
8:30 – 12:15 Introduction, review of sequencing technologies, crash course in Linux command line, data formats and quality control
12:15 – 1:30 Lunch
1:30 – 5:00 Genome / transcriptome assembly, Ray and Trinity
6:00 Group Social
  
Tuesday, June 6
8:45 – 12:15 Assessment of sequence assemblies, BLAST and MITOS
12:15 – 1:30 Lunch
1:30 – 5:00 MITOS results, annotation via Trinotate, awk, grep, sed 
  
Wednesday, June 7
8:45 – 12:15 Mapping reads to references and SAM/BAM, BWA, Bowtie2, SAMtools
12:15 – 1:30 Lunch
1:30 – 5:00 Variant (SNP/INDEL) calling from mapped reads, Bowtie2, SAMtools, BCFtools
  
Thursday, June 8
8:45 – 12:15 Analyses of RNA expression data, Bowtie2, eXpress, awk, grep and sed
12:15 – 1:30 Lunch
1:30 – 2:30 Data from Short Read Archive (SRA) at NCBI
3:00 Keynote Seminar by Dr. Nirav Merchant
5:30 Social and Bootcamp Banquet
  
Friday, June 9
8:45 – 12:15 Visualization of data
12:15 – 1:30 Lunch
1:30 – 5:00 Databases and other tools



Last Updated: 02/22/2017