Program 2027: Difference between revisions

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<DT>11:00am-12:00pm</DT>
<DT>11:00am-12:00pm</DT>
<DD>Exercise: Logging on to our pupil servers ([[Logging on to pupil system]])</DD>
<DD>Exercise: Logging on to our pupil servers ([[Logging on to pupil system]])</DD>
<DD>Mick Westbury , Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain </DD>


<DT>12:00pm-1:00pm</DT>  
<DT>12:00pm-1:00pm</DT>  
Line 54: Line 54:
<DT>1:00pm-1:30pm</DT>
<DT>1:00pm-1:30pm</DT>
<DD>Exercise: Logging on to our pupil servers ([[Logging on to pupil system]])</DD>
<DD>Exercise: Logging on to our pupil servers ([[Logging on to pupil system]])</DD>
<DD>Mick Westbury , Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain </DD>


<DT>1:30pm-2:15pm </DT>
<DT>1:30pm-2:15pm </DT>
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([[Basic UNIX notes]])
([[Basic UNIX notes]])
([[Advanced UNIX and Pipes]])</DD>  
([[Advanced UNIX and Pipes]])</DD>  
<DD>Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain </DD>


<DT>2:15pm-2:30pm</DT>
<DT>2:15pm-2:30pm</DT>
Line 73: Line 73:
([[Basic UNIX notes]])
([[Basic UNIX notes]])
([[Advanced UNIX and Pipes]])</DD>  
([[Advanced UNIX and Pipes]])</DD>  
<DD>Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain </DD>


<DT>3:30pm-4:00pm </DT>
<DT>3:30pm-4:00pm </DT>
<DD>First look at data
<DD>First look at data
([[First look exercise]])
([[First look exercise]])
<DD>Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain </DD>


</DL>
</DL>
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<DT>9:00am-9:45am </DT>
<DT>9:00am-9:45am </DT>
<DD>Data basics ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_2-1-Data_basics.pdf Lecture slides]) ([[Data basics exercise]]) ([[Data basics exercise answers]])</DD>
<DD>Data basics ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_2-1-Data_basics.pdf Lecture slides]) ([[Data basics exercise]]) ([[Data basics exercise answers]])</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain </DD>




Line 115: Line 115:
<DT>2:00pm-4:00pm</DT>
<DT>2:00pm-4:00pm</DT>
<DD>Exercise: Alignment ([[Alignment exercise]]) ([[Alignment exercise answers]])</DD>
<DD>Exercise: Alignment ([[Alignment exercise]]) ([[Alignment exercise answers]])</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain </DD>
<DL>
<DL>


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<DD>Exercise: Preprocessing ([[Postprocess exercise]])  ([[Postprocess_exercise_answers]])</DD>
<DD>Exercise: Preprocessing ([[Postprocess exercise]])  ([[Postprocess_exercise_answers]])</DD>
<DD>Exercise: variant calling part 1 ([[SNP calling exercise part 1]]) ([[SNP_calling_exercise_answers part 1]])</DD>
<DD>Exercise: variant calling part 1 ([[SNP calling exercise part 1]]) ([[SNP_calling_exercise_answers part 1]])</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>




Line 157: Line 157:
<DT>2:00pm-4:00pm</DT>
<DT>2:00pm-4:00pm</DT>
<DD>Exercise: variant calling part 2 ([[SNP calling exercise part 2]]) ([[SNP_calling_exercise_answers part 2]]) </DD>
<DD>Exercise: variant calling part 2 ([[SNP calling exercise part 2]]) ([[SNP_calling_exercise_answers part 2]]) </DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


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<DT>10:00pm-12:00pm</DT>
<DT>10:00pm-12:00pm</DT>
<DD>Exercise: de novo assembly ([[denovo exercise]]) ([[denovo solution]]) </DD>
<DD>Exercise: de novo assembly ([[denovo exercise]]) ([[denovo solution]]) </DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>




Line 197: Line 197:
<DT>2:00pm-4:00pm</DT>
<DT>2:00pm-4:00pm</DT>
<DD>Exercise: RNAseq ([[Rnaseq_exercise]]) <!-- ([[Rnaseq_exercise_answers]]) --> </DD>
<DD>Exercise: RNAseq ([[Rnaseq_exercise]]) <!-- ([[Rnaseq_exercise_answers]]) --> </DD>
<DD>Kristoffer Vitting-Seerup, Amanda Gammelby Qvesel, Mads Hartmann </DD>
<DD>Kristoffer Vitting-Seerup, Pilar Ballesteros Cuartero, Jayesh Jain </DD>


<BR>
<BR>
Line 215: Line 215:
<DT>10:15pm-12:00pm</DT>
<DT>10:15pm-12:00pm</DT>
<DD>Exercise: Ancient DNA ([[Ancient DNA exercise]]) ([[Ancient_DNA_exercise_answers]])</DD>
<DD>Exercise: Ancient DNA ([[Ancient DNA exercise]]) ([[Ancient_DNA_exercise_answers]])</DD>
<DD>Martin Sikora, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>Martin Sikora, Pilar Ballesteros Cuartero, Jayesh Jain</DD>




Line 231: Line 231:
<DT>2:15pm-4:00pm</DT>
<DT>2:15pm-4:00pm</DT>
<DD>Exercise: 3D Genomics with Hi-C ([[Exercise and answers]])</DD>
<DD>Exercise: 3D Genomics with Hi-C ([[Exercise and answers]])</DD>
<DD> Juan Rodríguez, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Juan Rodríguez, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
<BR>
<BR>


Line 254: Line 254:
<DT>10:00am-11:10am</DT>
<DT>10:00am-11:10am</DT>
<DD>Exercise: ([[ Microbial_genomics_exercise ]]) </DD>
<DD>Exercise: ([[ Microbial_genomics_exercise ]]) </DD>
<DD>Rasmus Lykke Marvig, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>Rasmus Lykke Marvig, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>11:10pm-12:00pm</DT>
<DT>11:10pm-12:00pm</DT>
Line 265: Line 265:
<DT>1:00pm-4:00pm</DT>
<DT>1:00pm-4:00pm</DT>
<DD>Exercise: ([[ Microbial_genomics_exercise ]]) </DD>
<DD>Exercise: ([[ Microbial_genomics_exercise ]]) </DD>
<DD>Rasmus Lykke Marvig, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>Rasmus Lykke Marvig, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 282: Line 282:
<DT>9:00am-9:55am</DT>
<DT>9:00am-9:55am</DT>
<DD>Lecture 1 + exercise: Tree thinking ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_1_Tree_thinking.pdf Lecture slides])</DD>
<DD>Lecture 1 + exercise: Tree thinking ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_1_Tree_thinking.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>10:00am-10:55am</DT>
<DT>10:00am-10:55am</DT>
<DD>Lecture 2 + exercise: Data ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_2_Data.pdf Lecture slides])</DD>
<DD>Lecture 2 + exercise: Data ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_2_Data.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>11:00am-11:55am</DT>
<DT>11:00am-11:55am</DT>
<DD>Lecture 3 + exercise: Basic methods ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_3_Basic_methods.pdf Lecture slides])</DD>
<DD>Lecture 3 + exercise: Basic methods ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_3_Basic_methods.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>12:00pm-1:00pm </DT>
<DT>12:00pm-1:00pm </DT>
Line 297: Line 297:
<DT>1:00am-1:55am</DT>
<DT>1:00am-1:55am</DT>
<DD>Lecture 4 + exercise: Models and support ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_4_Models_and_support.pdf Lecture slides])</DD>
<DD>Lecture 4 + exercise: Models and support ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_4_Models_and_support.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>2:00am-2:55am</DT>
<DT>2:00am-2:55am</DT>
<DD>Lecture 5 + exercise: Gene trees ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_5_Gene_trees.pdf Lecture slides])</DD>
<DD>Lecture 5 + exercise: Gene trees ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_5_Gene_trees.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>3:00am-3:55am</DT>
<DT>3:00am-3:55am</DT>
<DD>Lecture 6 + exercise: Molecular dating ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_6_MolecularDating.pdf Lecture slides])</DD>
<DD>Lecture 6 + exercise: Molecular dating ([https://teaching.healthtech.dtu.dk/material/22126/2026/Lecture_6_MolecularDating.pdf Lecture slides])</DD>
<DD>David Duchene, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD>David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 325: Line 325:
<DT>10:10am-12:00pm</DT>  
<DT>10:10am-12:00pm</DT>  
<DD>Exercise: Metabarcoding ([https://github.com/leholman/25.DTUmetabarcodingExercise/blob/main/README.md Metabarcoding Exercises]) </DD>
<DD>Exercise: Metabarcoding ([https://github.com/leholman/25.DTUmetabarcodingExercise/blob/main/README.md Metabarcoding Exercises]) </DD>
<DD> Luke Holman, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Luke Holman, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>12:00pm-1:00pm </DT>
<DT>12:00pm-1:00pm </DT>
Line 339: Line 339:
<DT>1:45pm-2:30pm </DT>  
<DT>1:45pm-2:30pm </DT>  
<DD>Projects & Group formation ([https://teaching.healthtech.dtu.dk/material/22126/2026/Poster.pdf Lecture slides] [http://teaching.healthtech.dtu.dk/material/22126/2023/posters.tar.gz Examples from previous courses]) </DD>
<DD>Projects & Group formation ([https://teaching.healthtech.dtu.dk/material/22126/2026/Poster.pdf Lecture slides] [http://teaching.healthtech.dtu.dk/material/22126/2023/posters.tar.gz Examples from previous courses]) </DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>


<DT>2:30pm-4:00pm </DT>   
<DT>2:30pm-4:00pm </DT>   
<DD>Projects & Group formation, prepare an outline for tomorrow. please write group names in the [https://docs.google.com/document/d/1W5HzThk4zSi2xAE4dwmtgw35JtyNbwhuizseiLrxLr0/edit?usp=sharing document for 2026]</DD>
<DD>Projects & Group formation, prepare an outline for tomorrow. please write group names in the [https://docs.google.com/document/d/1W5HzThk4zSi2xAE4dwmtgw35JtyNbwhuizseiLrxLr0/edit?usp=sharing document for 2026]</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


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<DT>1:00pm-3:00pm</DT>
<DT>1:00pm-3:00pm</DT>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 381: Line 381:
<DT>1:00pm-3:00pm</DT>
<DT>1:00pm-3:00pm</DT>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 396: Line 396:
<DT>1:00pm-3:00pm</DT>
<DT>1:00pm-3:00pm</DT>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 411: Line 411:
<DT>1:00pm-3:00pm</DT>
<DT>1:00pm-3:00pm</DT>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


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<DT>1:00pm-3:00pm</DT>
<DT>1:00pm-3:00pm</DT>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Line 441: Line 441:
<DD>Q&A: Practical information about the exam</DD>
<DD>Q&A: Practical information about the exam</DD>
<DD>Project work/Office hours</DD>
<DD>Project work/Office hours</DD>
<DD> Mick Westbury, Amanda Gammelby Qvesel, Mads Hartmann</DD>
<DD> Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain</DD>
</DL>
</DL>


Latest revision as of 10:34, 26 October 2026

NOTE: THIS PAGE IS UNDER CONSTRUCTION WITH A NEW TEACHER IN 2026

REMEMBER TO BRING A LAPTOP FOR EXERCISES


Lectures will be in person in building 341 in auditorium 23.


Lectures and exercises will take place on Discord (https://discord.gg/Qgw9M3SZA5). Please register with your full name. Will use Discord for online classes and collaboration with your project partners. Rather than emailing questions to the teaching staff, I encourage you to post your questions on discord.


The course has two main parts, the first half is lectures and exercises and the last half is project work ending with the exam on Friday 23rd of January 2026.


For the laptop if you have a secure laptop (e.g. work laptop from Statens Serum Institut for instance), please bring your personal laptop.


Course Program - January 2026

Monday, January 4 (Day 1)

Introduction - Next Generation Sequencing

9:00am-9:30am
Introduction to course (Lecture slides)
Mick Westbury
9:30am-10:00am
Introduction to NGS (Lecture slides)
Mick Westbury
10:00am-10:45am
The NGS revolution (Lecture slides)
Mick Westbury
10:45am-11:00am
Break
11:00am-12:00pm
Exercise: Logging on to our pupil servers (Logging on to pupil system)
Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00pm-1:30pm
Exercise: Logging on to our pupil servers (Logging on to pupil system)
Mick Westbury , Pilar Ballesteros Cuartero, Jayesh Jain
1:30pm-2:15pm
Introduction to UNIX
(Video lectures to watch from "Unix intro.." to "Touching upon...")
(Unix exercises – possible answers here) (Basic UNIX notes) (Advanced UNIX and Pipes)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
2:15pm-2:30pm
Break
2:30pm-3:30pm
Introduction to UNIX (continued)
(Video lectures to watch from "Unix intro.." to "Touching upon...")
(Unix exercises – possible answers here) (Basic UNIX notes) (Advanced UNIX and Pipes)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
3:30pm-4:00pm
First look at data (First look exercise)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Tuesday, January 5 (Day 2)

Data pre-processing & Alignment

9:00am-9:45am
Data basics (Lecture slides) (Data basics exercise) (Data basics exercise answers)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
9:45am-10:00am
Break
10:00am-12:00pm
Data pre-processing (Lecture slides) (Data Preprocess exercise) (Data Preprocess exercise answers)
Mick Westbury
12:00pm-1:00pm
Lunch Break
1:00pm-1:45pm
Alignment (Lecture slides)
Mick Westbury
1:45pm-2:00pm
Break
2:00pm-4:00pm
Exercise: Alignment (Alignment exercise) (Alignment exercise answers)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain

Wednesday, January 6 (Day 3)

Variant calling

9:00am-9:30am
Functional Variation
Mick Westbury, (Lecture slides)
9:30am-10:15am
Variant calling part 1 (Lecture slides)
Mick Westbury
10:15am-10:30am
Break
10:30am-12:00pm
Exercise: Preprocessing (Postprocess exercise) (Postprocess_exercise_answers)
Exercise: variant calling part 1 (SNP calling exercise part 1) (SNP_calling_exercise_answers part 1)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00pm-1:45pm
Lecture: variant calling part 2 (Lecture slides)
Mick Westbury
1:45pm-2:00pm
Break
2:00pm-4:00pm
Exercise: variant calling part 2 (SNP calling exercise part 2) (SNP_calling_exercise_answers part 2)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Thursday, January 7 (Day 4)

Assembly, annotation and RNA-seq

9:00am-9:45pm
Lecture: de novo assembly and genomic annotations (Lecture slides)
Mick Westbury
9:45pm-10:00pm
Break
10:00pm-12:00pm
Exercise: de novo assembly (denovo exercise) (denovo solution)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00pm-1:45pm
Lecture: RNAseq (Lecture slides)
Kristoffer Vitting-Seerup
1:45pm-2:00pm
Break
2:00pm-4:00pm
Exercise: RNAseq (Rnaseq_exercise)
Kristoffer Vitting-Seerup, Pilar Ballesteros Cuartero, Jayesh Jain

Friday, January 8 (Day 5)

Ancient DNA and

9:00am-10:00pm
Ancient DNA (Lecture slides)
Martin Sikora
10:00pm-10:15pm
Break
10:15pm-12:00pm
Exercise: Ancient DNA (Ancient DNA exercise) (Ancient_DNA_exercise_answers)
Martin Sikora, Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00pm-2:00pm
Lecture: 3D Genomics with Hi-C (Lecture slides)
Juan Rodríguez
2:00am-2:15pm
Break
2:15pm-4:00pm
Exercise: 3D Genomics with Hi-C (Exercise and answers)
Juan Rodríguez, Pilar Ballesteros Cuartero, Jayesh Jain


Monday, January 11 (Day 6)

Microbial genomics

9:00am-9:45am
Lecture: Use of next-generation (genome) sequencing in clinical microbiology (Lecture slides 1-30)
Rasmus Lykke Marvig
9:45am-10:00am
Break
10:00am-11:10am
Exercise: (Microbial_genomics_exercise )
Rasmus Lykke Marvig, Pilar Ballesteros Cuartero, Jayesh Jain
11:10pm-12:00pm
Lecture: Use of next-generation (genome) sequencing in clinical microbiology (Lecture slides 31-75)
Rasmus Lykke Marvig
12:00pm-1:00pm
Lunch Break
1:00pm-4:00pm
Exercise: (Microbial_genomics_exercise )
Rasmus Lykke Marvig, Pilar Ballesteros Cuartero, Jayesh Jain


Tuesday, January 12 (Day 7)

Phylogenomics

The same exercise page will be used throughout the day: (Exercise) (Solution)
9:00am-9:55am
Lecture 1 + exercise: Tree thinking (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain
10:00am-10:55am
Lecture 2 + exercise: Data (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain
11:00am-11:55am
Lecture 3 + exercise: Basic methods (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00am-1:55am
Lecture 4 + exercise: Models and support (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain
2:00am-2:55am
Lecture 5 + exercise: Gene trees (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain
3:00am-3:55am
Lecture 6 + exercise: Molecular dating (Lecture slides)
David Duchene, Pilar Ballesteros Cuartero, Jayesh Jain



Wednesday, January 13 (Day 8)

Metabarcoding and group project

9:00am-9:55am
Metabarcoding (Lecture slides)
Luke Holman
9:55am-10:10am
Break
10:10am-12:00pm
Exercise: Metabarcoding (Metabarcoding Exercises)
Luke Holman, Pilar Ballesteros Cuartero, Jayesh Jain
12:00pm-1:00pm
Lunch Break
1:00pm-1:30pm
Recap Test (Test)(Answers)
Mick Westbury
1:30pm-1:45pm
Break
1:45pm-2:30pm
Projects & Group formation (Lecture slides Examples from previous courses)
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain
2:30pm-4:00pm
Projects & Group formation, prepare an outline for tomorrow. please write group names in the document for 2026
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Thursday, January 14 (Day 9)

Project work

10:00am-12:00pm
Project consolation, check when your 3 minutes are Timesheet
12:00pm-1:00pm
Lunch Break
1:00pm-3:00pm
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Friday, January 15 (Day 10)

Project work

9:00am-4:00pm
Project work
1:00pm-3:00pm
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Monday, January 18 (Day 11)

Project work

9:00am-4:00pm
Project work
1:00pm-3:00pm
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Tuesday, January 19 (Day 12)

Project work

9:00am-4:00pm
Project work
1:00pm-3:00pm
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Wednesday, January 20 (Day 13)

Project work

9:00am-4:00pm
Project work
1:00pm-3:00pm
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Thursday, January 21 (Day 14)

Project Work & Submit poster

10:00am-12:00pm
Q&A: Practical information about the exam
Project work/Office hours
Mick Westbury, Pilar Ballesteros Cuartero, Jayesh Jain


Friday, January 22 (Day 15)

Exam

9:00am-4:00pm
Written Exam
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