Differences between revisions 8 and 33 (spanning 25 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.

Draft timetable (Subject to Change)

Mornings, 9:30 -12:30 (Monday 10:00 - 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, PM	Talk: Indroductory theory	Slides	Mark
	Talk: Python, object-orientation and models.	Slides	Mark
	Practical 0: Checking ScrumPy installation		All
Tue 15th, AM	Talk: Structural analysis of small models.	Slides
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	Case studies in biotechnology and metabolic engineering (link needs updating!)	Slides	David
	Talk: Analysis of GSMs - Novel antibiotic targets	Slides	Hassan
	Practical 2:	Instructions
Wed 16th, PM	Practical 2: (continued)	Instructions
	Talk: Metabolic engineering of Geobaccilus	Slides	Hassan
	Concluding remarks and presentation of certificates

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-== Draft timetable ==
+== Draft timetable (Subject to Change) ==
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-||'''Time''' ||'''Activity''' ||'''Who''' ||
||Mon 14th, AM ||Registration and admin ||                        ||
||<style="text-align:center" |3>Mon 14th, PM ||'''Talk:''' Indroductory theory ||<style="text-align:center" |1>                        ||
||'''Talk:''' Python, object-orientation and models. ||<style="text-align:center" |1>Mark ||
||'''Practical 0:''' Checking !ScrumPy installation ||<style="text-align:center" |1>All ||
||<style="text-align:center" |2>Tue 15th, AM ||'''Talk:''' Structural analysis of small models. ||<style="text-align:center" |1>                        ||
||'''Practical 1''': Structural analysis of small models ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Tue 15th, PM ||'''Talk:''' Construction of Genome-scale models. ||<style="text-align:center" |1>                        ||
||'''Talk:''' Intro LP/FBA ||<style="text-align:center" |1>                        ||
||'''Practical 1''': (continued) ||<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 need updating!) ||<style="text-align:center" |1>David ||
||'''Talk:''' Analysis of GSMs ||<style="text-align:center" |1>                        ||
||'''Practical 2:''' Analysis of GSMs ||<style="text-align:center" |1>All ||
||<style="text-align:center" |3>Wed 16th, PM ||'''Practical 2:''' (continued) ||<style="text-align:center" |1>All ||
||Concluding talk - what about? ||<style="text-align:center" |1>                        ||
||(presentation of certificates ?) ||<style="text-align:center" |1>                        ||
+||<tablewidth="860px" tableheight="449px">'''Time''' ||'''Activity''' ||'''Resources''' ||'''Who''' ||
||Mon 14th, AM ||Registration and admin ||                        ||                        ||
||<style="text-align:center" |3>Mon 14th, PM ||'''Talk:''' Indroductory theory ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L1/Slides.pdf|Slides]] ||<style="text-align:center" |1>Mark ||
||'''Talk:''' Python, object-orientation and models. ||<style="text-align:left;" |1>[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L2/Slides.pdf|Slides]] ||<style="text-align:center" |1>Mark ||
||'''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>[[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 ||[[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 - Novel antibiotic targets ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L7/Slides.pdf|Slides]] ||Hassan ||
||'''Practical 2:''' ||[[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 Geobaccilus ||[[http://mudsharkstatic.brookes.ac.uk/Pune2016/L8/Slides.pdf|Slides]] ||Hassan ||
||Concluding remarks and presentation of certificates ||                        ||                        ||