MICROBIAL METAGENOMICS LABORATORY
MICROBIAL METAGENOMICS LABORATORY
Assess knowledge of the students regarding unix and command-line
Assess knowledge of the students regarding unix and command-line
It is very important to assess the knowledge of the students regarding the use of UNIX and the command-line interface in order eventually to form a couple of students having complementary abilities that can work on the data analysis.
It is very important to assess the knowledge of the students regarding the use of UNIX and the command-line interface in order eventually to form a couple of students having complementary abilities that can work on the data analysis.
FIRST/SECON DAY
FIRST/SECON DAY
General description on the unix command line
General description on the unix command line
Before starting it will be very useful to have a general description regarding unix command line with examples; this can be skipped by students already at agood level in unix command line use.
Before starting it will be very useful to have a general description regarding unix command line with examples; this can be skipped by students already at agood level in unix command line use.
First resource - a movie regarding command-line in unix
First resource - a movie regarding command-line in unix
C-DEBIEBICSBEACON_Introduction_to_Bioinformatics_for_Metagenomics/Day 1 - Morning Part 1 Introductions and Introductions to Unix.mp4
C-DEBIEBICSBEACON_Introduction_to_Bioinformatics_for_Metagenomics/Day 1 - Morning Part 1 Introductions and Introductions to Unix.mp4
Second resource - a movie about a simple analysis in QIIME2
Second resource - a movie about a simple analysis in QIIME2
Video with demo regarding basic usage of QIIME2
Video with demo regarding basic usage of QIIME2
QIIME2 tutorial witk Kristin Yoshimura (1h 40min)
QIIME2 tutorial witk Kristin Yoshimura (1h 40min)
Let’s start!
Let’s start!
First part will be based on QIIME2 tutorials already available here
First part will be based on QIIME2 tutorials already available here
https://docs.qiime2.org/2019.10/ see Tutorials
https://docs.qiime2.org/2019.10/ see Tutorials
These tutorials include some questions that students will answer during the practical part.
These tutorials include some questions that students will answer during the practical part.
Overview of QIIME2 plugins tutorial.
Overview of QIIME2 plugins tutorial.
This link is very useful because it describes the workflow of QIIME2, which is important in order not to be lost during the analysis and to keep track of the file names.
This link is very useful because it describes the workflow of QIIME2, which is important in order not to be lost during the analysis and to keep track of the file names.
First experiment - moving pictures tutorial
First experiment - moving pictures tutorial
Second experiment - Fecal microbiota transplant (FMT) study: an exercise
Second experiment - Fecal microbiota transplant (FMT) study: an exercise
Third experiment - “Atacama soil microbiome” tutorial
Third experiment - “Atacama soil microbiome” tutorial
Fourth experiment - Parkinson’s Mouse Tutorial
Fourth experiment - Parkinson’s Mouse Tutorial