Dates on Monday. 25.10.21 - Friday. 29.10.21, Monday. 01.11.21 - Friday. 05.11.21 08:30 - 16:00 Participation in mar570 course ( Profile Module Introduction to DNA-sequencing and sequence analysis ) is a pre-requisite
Notes for the module
Prerequisites
The course „Introduction in sequencing and sequence analysis”. Previous programming experience is not required.
Capacity / number of participants
15 (
Proportionale Aufteilung zwischen Master MUWI und Master Microbiology
)
Time of examination
Announced during the course.
Module examination
Written protocol (80%) and class participation (20%).
Skills to be acquired in this module
DNA sequencing has become a routine method in microbiology research. Most of the times, sequence analysis requires knowledge of a programming language. One of the programing languages most used for this purpose is R. The course will cover the following topics: I. programming in R using an integrated development environment (RStudio) II. working with strings (stringr package) III. working with lists and data frames (readr and dplyr package) IV. sequence analysis (seqinr, Bioconductor packages: Biostrings, GenomicRanges, Decipher) V. (meta)-genomic and data visualization (ggplot2, Gviz) VI. Creating sequence / metadata dabases VII. Accessing and mining sequence / metadata databases though R based web applications (Shiny, DT and Shinyjs packages) VIII. reporting in R (Rmarkdown and Knitr packages) IX. managing code (Roxygen2 package) X. microbial genome annotation using R
