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DTSTAMP:20260623T190818Z
UID:746ed525-3014-4352-9276-37ee37074465
DTSTART:20210202T090000Z
DTEND:20210205T170000Z
DESCRIPTION:Educators:\nAlexander Sczyrba\, Sebastian Jünemann\, Nils Klei
 nbölting (BiGi)\, Franziska Klincke (University of Copenhagen)\, Joseph N
 esme (University of Copenhagen)\, \n\nLocation:\nOnline\n\nDate:\nFebruary
  2nd to 5th\, 2021\n\nContent:\nThe aim of this 4-day workshop will be to 
 give students a brief overview of the tools and bioinformatics techniques 
 available for the analysis of next generation sequence (NGS) data from mic
 robial communities. The format will comprise a mixture of lectures and han
 ds-on tutorials where students will process example data sets in real-time
  in the de.NBI Cloud environment. After covering general aspects of sequen
 ce based analysis (e.g. pre-processing\, quality measurements\, error hand
 ling\, and so on) the course is divided into two parts: whole-genome shotg
 un (WGS) metagenome analysis and ecological statistics. If necessary\, a c
 ompact introduction into the Linux operating system and the usage of the c
 ommand line interface will be given on the first day to guarantee a consis
 tent baseline for the following lectures. On the first day of the metageno
 mics course\, advantages and disadvantages of whole metagenome sequencing 
 will be illustrated. As WGS metagenomics has the potential to address the 
 full spectra of genome-based issues\, the focus here will be on assembly\,
  binning and taxonomic and functional analysis with the aid of different b
 ioinformatic tools. The aim of the second part of the course is to give st
 udents a basic understanding of ecological statistics and apply it to cens
 us data typically obtained from shotgun metagenome analysis. Using R and t
 he RStudio environment\, the workshop will consist in a short introduction
  of the R programming language and hands-on method to import count data\, 
 store it in the PhyloSeq class object and use this object to: 1) calculate
  within (alpha-) and between (beta-) diversity of samples groups\; 2) perf
 orm differential abundance testing between case and control\; 3) produce a
 nd display correlations. The workshop will use a real study metagenomic se
 quencing dataset and help the students to produce quality figures for all 
 aspect covered in the course with reproducible R scripts.\n\nPrerequisites
 :\n- basic knowledge in microbiology and NGS-based analysis\n- practical e
 xperience in a Linux/Unix derivatives\, the command line interface and fil
 e system required\n\nPlease note that participation to this course does no
 t depend on the actual Linux experience of the applicant. Both\, experienc
 ed as well as inexperienced Linux users are encouraged to submit an applic
 ation. However\, the Linux introducing session in the morning of the first
  day is optional only for applicants fulfilling the Linux prerequisite.
SUMMARY:Joint de.NBI/SIMBA Training Course on Metagenome Analysis
URL;VALUE=URI:https://www.denbi.de/training/1147-joint-de-nbi-simba-trainin
 g-course-on-metagenome-analysis
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