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DESCRIPTION:## Overview\nThis course will cover the metagenomics data analy
 sis workflow from data generation to downstream analysis. Participants wil
 l explore the tools to manage\, share\, analyze and interpret metagenomics
  data. The content will include issues of data quality control and how to 
 process the data until publication.  \n\nBoth targeted marker-gene (e.g.\,
  16S) and whole-genome shotgun (WGS) approaches will be covered. Discussio
 ns will also explore considerations when selecting the sequencing options 
 (long or short reads)\, exploring targeted data to OTUs or ASVs\, assembli
 ng and binning metagenomics data\, the analyses that can be carried out\, 
 and what downstream analyses options and tools are available. \n\n## Audie
 nce\nThis course is designed for PhD students\, postdoctoral and other res
 earchers in the life sciences from both academia and industry who are work
 ing in the field of metagenomics and are currently in the early stages of 
 data preparation or data analysis. \n\n## Learning outcomes\nAt the end of
  the course\, the participants are expected to: \n- Know the concepts of m
 etagenomics \n- Understand and compare the two main methods (targeted vs w
 hole genome) \n- Perform QC and cleaning of the data \n- Comprehend about 
 various databases and pipelines \n- Evaluate the results of the pipelines 
 \n- Identify downstream analysis options \n\n\n## Prerequisites\n##### Kno
 wledge / competencies\nYou should meet the learning outcomes of [First Ste
 ps with R in Life Sciences](https://www.sib.swiss/training/course/FSWRR) a
 nd either [First Steps with UNIX in Life Sciences](https://www.sib.swiss/t
 raining/course/20240912_FSWU) or the e-learning course [UNIX Fundamentals]
 (https://www.sib.swiss/training/course/2012_UNIXF).\n\nSpecifically\, part
 icipants should be familiar with Rstudio\, how to install a library\, matr
 ix and data frame manipulation\, import and export data from text files. I
 n case of doubt\, evaluate your R skills with this [quiz](https://docs.goo
 gle.com/forms/d/e/1FAIpQLSdIyeuabd_ZOWXgI1MWHapmaOMu20L9ESkLDZiWnpmkpujyOg
 /viewform?usp=sf_link)\, before registering.\n\n \n##### Technical\nYou ar
 e required to bring your own laptop with the latest [R](https://www.r-proj
 ect.org/) and [RStudio](https://www.rstudio.com/products/rstudio/download/
 ) versions installed. \n\n## Schedule - CET time zone\n\nThe course will s
 tart at 9:00 and end around 17:00. \n\nDay1am: General introduction to the
  topic and Unix/R reminder \n\nDay1pm: Sequencing options and QC (short/lo
 ng reads) \n\nDay2am: 16S analysis with DADA2 \n\nDay2pm: 16S downstream a
 nalysis \n\nDay3am: WGS assembly/binning with nfcore-mag \n\nDay3pm: WGS d
 ownstream analysis \n\n## Application\nThe registration fees for academics
  are **300 CHF** and **1500 CHF** for for-profit companies.\n\n\nWhile par
 ticipants are registered on a first come\, first served basis\, exceptions
  may be made to ensure diversity and equity\, which may increase the time 
 before your registration is confirmed.\n\nYou will be informed by email of
  your registration confirmation. Upon reception of the confirmation email\
 , participants will be asked to confirm attendance by paying the fees with
 in 5 days.\n\nApplications close on *23/04/2025*. Deadline for free-of-cha
 rge cancellation is set to *23/04/2025*. Cancellation after this date will
  not be reimbursed. Please note that participation in SIB courses is subje
 ct to our [general conditions](https://www.sib.swiss/training/terms-and-co
 nditions).\n\n## Venue and Time\n\nThis course will take place at the Univ
 ersity of Fribourg.\n\nThe course will start at 9:00 and end around 17:00.
  Precise information will be provided to the participants in due time.\n\n
 \n## Additional information\nCoordination: Valeria Di Cola\, SIB Training 
 Group.\n\nWe will recommend 0.75 ECTS credits for this course (given a pas
 sed exam at the end of the course).\n\nYou are welcome to register to the 
 SIB courses mailing list to be informed of all future courses and workshop
 s\, as well as all important deadlines using the form [here](https://lists
 .sib.swiss/postorius/lists/courses.lists.sib.swiss/).\n\nPlease note that 
 participation in SIB courses is subject to our [general conditions](https:
 //www.sib.swiss/training/terms-and-conditions).\n\nSIB abides by the [ELIX
 IR Code of Conduct](https://elixir-europe.org/events/code-of-conduct). Par
 ticipants of SIB courses are also required to abide by the same code.\n\nF
 or more information\, please contact [training@sib.swiss](mailto://trainin
 g@sib.swiss).
SUMMARY:Introduction to Metagenomics Data Analysis of Microbial Communities
URL;VALUE=URI:https://www.sib.swiss/training/course/20260504_MEMIC
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