Differences between revisions 21 and 41 (spanning 20 versions)

Modelling Workshop, Pune, 2016

Download the Virtualbox image and import it into virtual box (File/Import appliance). There is single user with the id 'scrumpy' with the password 'scrumpy'. 'scrumpy' is also the root password. This image is for pre-workshop testing and may well change!

Follow this link if you wish to install ScrumPy on a Linux computer.

Timetable (Subject to Change)

Mornings, 9:30 -12:30 (Monday 11:00 - 12:30); Lunch 12:30 - 14:00; Afternoons, 14:00 - 17:00 (at the latest)

Time	Activity	Resources	Who
Mon 14th, AM	Registration and admin
Mon 14th, AM	Welcome Talk		Anu + Mark
Mon 14th, PM	Talk: Indroductory theory	Slides	Mark
	Talk: Python, object-orientation and models.	Slides	Mark
	Practical 0: Checking ScrumPy Installation and Familiarisation	Instructions	All
Tue 15th, AM	Talk: Structural analysis of small models.	Slides	David
Tue 15th, AM	Practical 1: Structural analysis of small models	Instructions	All
Tue 15th, PM	Talk: Algorithms for calculating Elementary Modes	Slides	Hassan
	Talk: Linear Programming and Genome Scale Models	Slides	Mark
	Practical 1: (continued)	Instructions	All
Wed 16th, AM	Talk: Biotechnological Applications of Metabolic Network Analysis	Slides	David
	Talk: Analysis of GSMs - Novel antibiotic targets	Slides	Hassan
	Practical 2: Identifying Novel Antibiotic Targets in Salmonella	Instructions
Wed 16th, PM	Practical 2: (continued)	Instructions
	Talk: Metabolic engineering of Geobacillus	Slides	Hassan
	Concluding remarks and presentation of certificates

-  ⇤ ← Revision 21 as of 2016-03-03 17:40:56 → 
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+   ← Revision 41 as of 2016-03-13 14:01:20 → ⇥
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-Deletions are marked like this.
+Additions are marked like this.
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-Download the [[http://mudsharkstatic.brookes.ac.uk/Download/opt/ScrumPy-vm.ova|Virtualbox image]] and import it into virtual box (File/Import appliance). There is single user with the id 'scrumpy' with the password 'scrumpy'. 'scrumpy' is also the root password. This image is for pre-workshop testing and may well change!
+Download the [[http://mudsharkstatic.brookes.ac.uk/Download/opt/ScrumPy-vm.ova|Virtualbox image]]  and import it into virtual box (File/Import appliance). There is single  user with the id 'scrumpy' with the password 'scrumpy'. 'scrumpy' is  also the root password. This image is for pre-workshop testing and may  well change!
 Line 6:
-== Draft timetable ==
Mornings, 9:30 -12:30 (Monday 10:00 - 12:30); Lunch 12:30 - 14:00; Afternoons, 14:00 - 17:00 (at the latest)
+== Timetable (Subject to Change) ==
Mornings, 9:30 -12:30 (Monday 11:00 - 12:30); Lunch 12:30 - 14:00; Afternoons, 14:00 - 17:00 (at the latest)
 Line 9:
-||Mon 14th, AM ||Registration and admin ||                        ||                        ||
+||<style="text-align:center" |2>Mon 14th, AM ||Registration and admin ||<style="text-align:center" |1>                        ||<style="text-align:center" |1>                        ||
||Welcome Talk ||<style="text-align:center" |1>                        ||<style="text-align:center" |1>Anu + Mark ||
-Line 12:
+Line 13:
-||'''Practical 0:''' Checking !ScrumPy installation ||<style="text-align:center" |1>                        ||<style="text-align:center" |1>All ||
||<style="text-align:center" |2>Tue 15th, AM ||'''Talk:''' Structural analysis of small models. ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L3/Slides.pdf|Slides]] ||<style="text-align:center" |1>                        ||
||'''Practical 1''': Structural analysis of small models ||<style="text-align:center" |1>                        ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Tue 15th, PM ||'''Talk:''' Construction of GSMs OR E.M. Algorithms ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L4/Slides.pdf|Slides]] ||<style="text-align:center" |1>Hassan ||
||'''Talk:''' Intro LP/FBA(Could include Construction of GSMs here) ||<style="text-align:center" |1>[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L5/Slides.pdf|Slides]] ||<style="text-align:center" |1>                        ||
||'''Practical 1''': (continued) ||<style="text-align:center" |1>                        ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Wed 16th, AM ||[[http://mudsharkstatic.brookes.ac.uk/Delhi2013/Slides/wshop2_mca3.pdf|Case studies in biotechnology and metabolic engineering]] (link needs updating!) ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L6/Slides.pdf|Slides]] ||<style="text-align:center" |1>David ||
||'''Talk:''' Analysis of GSMs ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L7/Slides.pdf|Slides]] ||                        ||
||'''Practical 2:''' ||                        ||                        ||
||<style="text-align:center" |3>Wed 16th, PM ||Content ||                        ||<style="text-align:center" |1>                        ||
||Content ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L8/Slides.pdf|Slides]] ||                        ||
||Content ||                        ||                        ||
+||'''Practical 0:''' Checking !ScrumPy Installation and Familiarisation ||<style="text-align:center" |1>[[Meetings/Pune2016/P0|Instructions]] ||<style="text-align:center" |1>All ||
||<style="text-align:center" |2>Tue 15th, AM ||'''Talk:''' Structural analysis of small models. ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L3/Slides.pdf|Slides]] ||<style="text-align:center" |1>David ||
||'''Practical 1''': Structural analysis of small models ||<style="text-align:center" |1>[[Meetings/Pune2016/P1|Instructions]] ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Tue 15th, PM ||'''Talk:''' Algorithms for calculating Elementary Modes ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L4/Slides.pdf|Slides]] ||<style="text-align:center" |1>Hassan ||
||'''Talk:''' Linear Programming and Genome Scale Models ||<style="text-align:center" |1>[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L5/Slides.pdf|Slides]] ||<style="text-align:center" |1>Mark ||
||'''Practical 1''': (continued) ||<style="text-align:center" |1>[[Meetings/Pune2016/P1|Instructions]] ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Wed 16th, AM ||''' Talk:''' Biotechnological Applications of Metabolic Network Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L6/Slides.pdf|Slides]] ||<style="text-align:center" |1>David ||
||'''Talk:''' Analysis of GSMs - Novel antibiotic targets ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L7/Slides.pdf|Slides]] ||Hassan ||
||'''Practical 2: '''Identifying Novel Antibiotic Targets in Salmonella ||[[Meetings/Pune2016/P2|Instructions]] ||                        ||
||<style="text-align:center" |3>Wed 16th, PM ||'''Practical 2''': (continued) ||[[Meetings/Pune2016/P2|Instructions]] ||<style="text-align:center" |1>                        ||
||'''Talk:''' Metabolic engineering of Geobacillus ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L8/Slides.pdf|Slides]] ||Hassan ||
||Concluding remarks and presentation of certificates ||                        ||                        ||