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DTSTAMP:20260407T181530Z
UID:6f00b507-349f-4e36-9f98-2dff8c09b847
DTSTART:20260623T083000Z
DTEND:20260626T163000Z
DESCRIPTION:Note: This iteration of the course is currently not open for bo
 oking. However\, please [register your interest here](http://bioinfotraini
 ng.bio.cam.ac.uk/booking-form/?event-id=5879244&amp\;course-title=Working%
 20with%20Bacterial%20Genomes%20in-person%20INTERESTED) to be notified when
  spaces become available. Your registration ensures you will be the first 
 to know.\n    \n  \n\n\nThis comprehensive course equips you with essentia
 l skills and knowledge in bacterial genomics analysis\, primarily using Il
 lumina-sequenced samples\, although ONT workflows are also briefly covered
 . You'll gain an understanding of how to select the most appropriate analy
 sis workflow\, tailored to the genome diversity of a given bacterial speci
 es. Through hands-on training\, you'll apply both de novo assembly and ref
 erence-based mapping approaches to obtain bacterial genomes for your isola
 tes. You will apply standardised workflows for genome assembly and annotat
 ion\, including quality assessment criteria to ensure the reliability of y
 our results. Along with typing bacteria using methods such as MLST\, you'l
 l learn how to construct phylogenetic trees using whole genome and core ge
 nome alignments\, enabling you to explore the evolutionary relationships a
 mong bacterial isolates. You’ll extend this to estimate a time-scaled ph
 ylogeny using a starting phylogenetic tree. Lastly\, you'll apply methods 
 to detect antimicrobial resistance genes. As examples we will use ''Mycoba
 cterium tuberculosis''\, ''Staphylococcus aureus'' and ''Streptococcus pne
 umoniae''\, allowing you to become well-equipped to conduct bacterial geno
 mics analyses on a range of species.\n\n\n  \n    \n      ⚠ Please note 
 that participants must be comfortable using the Linux command line\, inclu
 ding basic file navigation (cd\, ls) and text editing with tools such as n
 ano. Students without prior command-line experience will struggle in this 
 course\, and are therefore strongly advised to complete introductory train
 ing before enrolling (see the prerequisites section).\n    \n  \n\n\n\nIf 
 you do not have a University of Cambridge [Raven account](https://legacy.r
 aven.cam.ac.uk/auth/account/) please book or register your interest [here]
 (http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=5879244&amp\;
 course-title=Working%20with%20Bacterial%20Genomes%20in-person).\nIf for an
 y reason the above links do not work\, please email [Research Informatics 
 Training Team](https://training.cam.ac.uk/bioinformatics/info/contact) wit
 h details of your course enquiry.\n\nAdditional information\n\n* ♿ The t
 raining room is located on the first floor and there is currently no wheel
 chair or level access.\n* Our courses are only free for registered Univers
 ity of Cambridge students. All other participants will be charged accordin
 g to our  [charging policy](http://www.training.cam.ac.uk/bioinformatics/i
 nfo/charging).\n* Attendance will be taken on all courses and a charge is 
 applied for non-attendance. After you have booked a place\, if you are una
 ble to attend any of the live sessions\, please email the [Research Inform
 atics Training Team](https://training.cam.ac.uk/bioinformatics/info/contac
 t).\n* Further details regarding eligibility criteria are available [here]
 (http://www.training.cam.ac.uk/bioinformatics/info/eligibility).\n* Guidan
 ce on visiting Cambridge and finding accommodation is available [here](htt
 ps://bioinfotraining.bio.cam.ac.uk/about).
LOCATION:Craik-Marshall Building
SUMMARY:Working with Bacterial Genomes (IN-PERSON)
URL;VALUE=URI:http://training.csx.cam.ac.uk/bioinformatics/event/5879244
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