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Question: Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29
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3.2 years ago by
Martin Morgan ♦♦ 20k
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Martin Morgan ♦♦ 20k wrote:
Course: Learning R / Bioconductor for Sequence Analysis Dates: October 27-29, Seattle, WA. Registration: https://register.bioconductor.org/Seattle-Oct-2014/ This course is directed at beginning and intermediate users who would like an introduction to the analysis and comprehension of high-throughput sequence data using R and Bioconductor. Day 1 focuses on learning essential background: an introduction to the R programming language; central concepts for effective use of Bioconductor software; and an overview of high-throughput sequence analysis work flows. Day 2 emphasizes use of Bioconductor for specific tasks: an RNA-seq differential expression work flow; exploratory, machine learning, and other statistical tasks; gene set enrichment; and annotation. Day 3 transitions to understanding effective approaches for managing larger challenges: strategies for working with large data, writing re-usable functions, developing reproducible reports and work flows, and visualizing results. The course combines lectures with extensive hands-on practicals; students are required to bring a laptop with wireless internet access and a modern version of the Chrome or Safari web browser. -- Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
ADD COMMENTlink modified 3.2 years ago by Son Pham40 • written 3.2 years ago by Martin Morgan ♦♦ 20k
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gravatar for Son Pham
3.2 years ago by
Son Pham40
Son Pham40 wrote:
Thanks Martin for offering the course. It's fantastics -- and if it would be an online course, like coursera, it will also be great for a lot of distant people. -Son. Son Pham, Ph.D cseweb.ucsd.edu/~kspham/ On Mon, Sep 15, 2014 at 7:13 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: > Course: Learning R / Bioconductor for Sequence Analysis > > Dates: October 27-29, Seattle, WA. > > Registration: https://register.bioconductor.org/Seattle-Oct-2014/ > > This course is directed at beginning and intermediate users who would like > an introduction to the analysis and comprehension of high-throughput > sequence data using R and Bioconductor. Day 1 focuses on learning essential > background: an introduction to the R programming language; central concepts > for effective use of Bioconductor software; and an overview of > high-throughput sequence analysis work flows. Day 2 emphasizes use of > Bioconductor for specific tasks: an RNA-seq differential expression work > flow; exploratory, machine learning, and other statistical tasks; gene set > enrichment; and annotation. Day 3 transitions to understanding effective > approaches for managing larger challenges: strategies for working with > large data, writing re-usable functions, developing reproducible reports > and work flows, and visualizing results. The course combines lectures with > extensive hands-on practicals; students are required to bring a laptop with > wireless internet access and a modern version of the Chrome or Safari web > browser. > -- > Computational Biology / Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N. > PO Box 19024 Seattle, WA 98109 > > Location: Arnold Building M1 B861 > Phone: (206) 667-2793 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane. > science.biology.informatics.conductor > [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor@r-project.org https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
ADD COMMENTlink written 3.2 years ago by Son Pham40
Seconded! An online version of the course would be indispensable. ...................................................................... ................................ Dale Richardson, Ph.D. Laboratory of Plant Molecular Biology Instituto Gulbenkian de Cięncia Rua da Quinta Grande, 6 2780-156 Oeiras Portugal http://www.igc.gulbenkian.pt Tel: +351 967 992 816 Email: drichardson@igc.gulbenkian.pt On 15/09/2014, at 17:27, Son Pham <spham@salk.edu> wrote: > Thanks Martin for offering the course. It's fantastics -- and if it would > be an online course, like coursera, it will also be great for a lot of > distant people. > > -Son. > > > > > > Son Pham, Ph.D > cseweb.ucsd.edu/~kspham/ > > On Mon, Sep 15, 2014 at 7:13 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: > >> Course: Learning R / Bioconductor for Sequence Analysis >> >> Dates: October 27-29, Seattle, WA. >> >> Registration: https://register.bioconductor.org/Seattle-Oct-2014/ >> >> This course is directed at beginning and intermediate users who would like >> an introduction to the analysis and comprehension of high- throughput >> sequence data using R and Bioconductor. Day 1 focuses on learning essential >> background: an introduction to the R programming language; central concepts >> for effective use of Bioconductor software; and an overview of >> high-throughput sequence analysis work flows. Day 2 emphasizes use of >> Bioconductor for specific tasks: an RNA-seq differential expression work >> flow; exploratory, machine learning, and other statistical tasks; gene set >> enrichment; and annotation. Day 3 transitions to understanding effective >> approaches for managing larger challenges: strategies for working with >> large data, writing re-usable functions, developing reproducible reports >> and work flows, and visualizing results. The course combines lectures with >> extensive hands-on practicals; students are required to bring a laptop with >> wireless internet access and a modern version of the Chrome or Safari web >> browser. >> -- >> Computational Biology / Fred Hutchinson Cancer Research Center >> 1100 Fairview Ave. N. >> PO Box 19024 Seattle, WA 98109 >> >> Location: Arnold Building M1 B861 >> Phone: (206) 667-2793 >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: http://news.gmane.org/gmane. >> science.biology.informatics.conductor >> > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor [[alternative HTML version deleted]]
ADD REPLYlink written 3.2 years ago by Dale Richardson30
On 09/15/2014 09:34 AM, Dale N. Richardson wrote: > Seconded! An online version of the course would be indispensable. It's a lot (as in months) of work to produce a true online course, and the material becomes dated very quickly! The static material from courses is at http://bioconductor.org/help/course-materials/ The 'community' page http://bioconductor.org/help/course-materials/ includes links to some videos and on-line material, including the EdX MOOC: PH525x Data Analysis for Genomics and some initial videos produced here https://www.youtube.com/results?search_query=bioconductor. We haven't looked at the infrastructure or cost (including opportunity cost) required to live stream three days worth of material (probably including 2 days worth of 'um' and 'oops'); maybe there's a sponsor out there willing to provide us with technical and financial support for this? The obstacles to making video available for the lecture part of our courses is becoming smaller, so it is not impossible to imagine that these will become part of the Bioc video collection (no promises with respect to the current course). While obviously not scalable, there are many training events offered each year http://bioconductor.org/help/events/. Hope that helps, Martin > > .................................................................... .................................. > Dale Richardson, Ph.D. > > Laboratory of Plant Molecular Biology > Instituto Gulbenkian de Cięncia > Rua da Quinta Grande, 6 > 2780-156 Oeiras > Portugal > http://www.igc.gulbenkian.pt <http: www.igc.gulbenkian.pt=""/> > > Tel: +351 967 992 816 > Email: drichardson@igc.gulbenkian.pt <mailto:drichardson@igc.gulbenkian.pt> > > > > > On 15/09/2014, at 17:27, Son Pham <spham@salk.edu <mailto:spham@salk.edu="">> wrote: > >> Thanks Martin for offering the course. It's fantastics -- and if it would >> be an online course, like coursera, it will also be great for a lot of >> distant people. >> >> -Son. >> >> >> >> >> >> Son Pham, Ph.D >> cseweb.ucsd.edu/~kspham/ <http: cseweb.ucsd.edu="" ~kspham=""/> >> >> On Mon, Sep 15, 2014 at 7:13 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: >> >>> Course: Learning R / Bioconductor for Sequence Analysis >>> >>> Dates: October 27-29, Seattle, WA. >>> >>> Registration: https://register.bioconductor.org/Seattle-Oct-2014/ >>> >>> This course is directed at beginning and intermediate users who would like >>> an introduction to the analysis and comprehension of high- throughput >>> sequence data using R and Bioconductor. Day 1 focuses on learning essential >>> background: an introduction to the R programming language; central concepts >>> for effective use of Bioconductor software; and an overview of >>> high-throughput sequence analysis work flows. Day 2 emphasizes use of >>> Bioconductor for specific tasks: an RNA-seq differential expression work >>> flow; exploratory, machine learning, and other statistical tasks; gene set >>> enrichment; and annotation. Day 3 transitions to understanding effective >>> approaches for managing larger challenges: strategies for working with >>> large data, writing re-usable functions, developing reproducible reports >>> and work flows, and visualizing results. The course combines lectures with >>> extensive hands-on practicals; students are required to bring a laptop with >>> wireless internet access and a modern version of the Chrome or Safari web >>> browser. >>> -- >>> Computational Biology / Fred Hutchinson Cancer Research Center >>> 1100 Fairview Ave. N. >>> PO Box 19024 Seattle, WA 98109 >>> >>> Location: Arnold Building M1 B861 >>> Phone: (206) 667-2793 >>> >>> _______________________________________________ >>> Bioconductor mailing list >>> Bioconductor@r-project.org >>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>> Search the archives: http://news.gmane.org/gmane. >>> science.biology.informatics.conductor >>> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
ADD REPLYlink written 3.2 years ago by Martin Morgan ♦♦ 20k
Hi Martin, Thanks a lot for the those links — I wasn’t aware of the static material from the courses. That’s a really wonderful resource that I’ll definitely take advantage of! Best of luck on the continued outreach efforts. I can definitely say for myself and probably many others: we’re grateful! Best, Dale ...................................................................... ................................ Dale Richardson, Ph.D. Laboratory of Plant Molecular Biology Instituto Gulbenkian de Cięncia Rua da Quinta Grande, 6 2780-156 Oeiras Portugal http://www.igc.gulbenkian.pt Tel: +351 967 992 816 Email: drichardson@igc.gulbenkian.pt On 15/09/2014, at 18:02, Martin Morgan <mtmorgan@fhcrc.org> wrote: > On 09/15/2014 09:34 AM, Dale N. Richardson wrote: >> Seconded! An online version of the course would be indispensable. > > It's a lot (as in months) of work to produce a true online course, and the material becomes dated very quickly! > > The static material from courses is at http://bioconductor.org/help /course-materials/ > > The 'community' page http://bioconductor.org/help/course-materials/ includes links to some videos and on-line material, including the EdX MOOC: PH525x Data Analysis for Genomics and some initial videos produced here https://www.youtube.com/results?search_query=bioconductor. > > We haven't looked at the infrastructure or cost (including opportunity cost) required to live stream three days worth of material (probably including 2 days worth of 'um' and 'oops'); maybe there's a sponsor out there willing to provide us with technical and financial support for this? > > The obstacles to making video available for the lecture part of our courses is becoming smaller, so it is not impossible to imagine that these will become part of the Bioc video collection (no promises with respect to the current course). > > While obviously not scalable, there are many training events offered each year http://bioconductor.org/help/events/. > > Hope that helps, > > Martin > > >> >> ................................................................... ................................... >> Dale Richardson, Ph.D. >> >> Laboratory of Plant Molecular Biology >> Instituto Gulbenkian de Cięncia >> Rua da Quinta Grande, 6 >> 2780-156 Oeiras >> Portugal >> http://www.igc.gulbenkian.pt <http: www.igc.gulbenkian.pt=""/> >> >> Tel: +351 967 992 816 >> Email: drichardson@igc.gulbenkian.pt <mailto:drichardson@igc.gulbenkian.pt> >> >> >> >> >> On 15/09/2014, at 17:27, Son Pham <spham@salk.edu <mailto:spham@salk.edu="">> wrote: >> >>> Thanks Martin for offering the course. It's fantastics -- and if it would >>> be an online course, like coursera, it will also be great for a lot of >>> distant people. >>> >>> -Son. >>> >>> >>> >>> >>> >>> Son Pham, Ph.D >>> cseweb.ucsd.edu/~kspham/ <http: cseweb.ucsd.edu="" ~kspham=""/> >>> >>> On Mon, Sep 15, 2014 at 7:13 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: >>> >>>> Course: Learning R / Bioconductor for Sequence Analysis >>>> >>>> Dates: October 27-29, Seattle, WA. >>>> >>>> Registration: https://register.bioconductor.org/Seattle-Oct-2014/ >>>> >>>> This course is directed at beginning and intermediate users who would like >>>> an introduction to the analysis and comprehension of high- throughput >>>> sequence data using R and Bioconductor. Day 1 focuses on learning essential >>>> background: an introduction to the R programming language; central concepts >>>> for effective use of Bioconductor software; and an overview of >>>> high-throughput sequence analysis work flows. Day 2 emphasizes use of >>>> Bioconductor for specific tasks: an RNA-seq differential expression work >>>> flow; exploratory, machine learning, and other statistical tasks; gene set >>>> enrichment; and annotation. Day 3 transitions to understanding effective >>>> approaches for managing larger challenges: strategies for working with >>>> large data, writing re-usable functions, developing reproducible reports >>>> and work flows, and visualizing results. The course combines lectures with >>>> extensive hands-on practicals; students are required to bring a laptop with >>>> wireless internet access and a modern version of the Chrome or Safari web >>>> browser. >>>> -- >>>> Computational Biology / Fred Hutchinson Cancer Research Center >>>> 1100 Fairview Ave. N. >>>> PO Box 19024 Seattle, WA 98109 >>>> >>>> Location: Arnold Building M1 B861 >>>> Phone: (206) 667-2793 >>>> >>>> _______________________________________________ >>>> Bioconductor mailing list >>>> Bioconductor@r-project.org >>>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>>> Search the archives: http://news.gmane.org/gmane. >>>> science.biology.informatics.conductor >>>> >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> Bioconductor mailing list >>> Bioconductor@r-project.org >>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>> Search the archives: >>> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > > -- > Computational Biology / Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N. > PO Box 19024 Seattle, WA 98109 > > Location: Arnold Building M1 B861 > Phone: (206) 667-2793 [[alternative HTML version deleted]]
ADD REPLYlink written 3.2 years ago by Dale Richardson30
I totally agree! Dr Thuy Do Lecturer in Microbiology Dpt of Oral Biology School of Dentistry, University of Leeds, Level 6 Worsley Building, Room 6.106. Clarendon way, Leeds, LS2 9LU, U.K. Tel: +44 113 3438936 ________________________________________ From: bioconductor-bounces@r-project.org [bioconductor- bounces@r-project.org] On Behalf Of Dale N. Richardson [drichardson@igc.gulbenkian.pt] Sent: 15 September 2014 17:34 To: Son Pham Cc: bioc-devel@r-project.org; bioconductor@r-project.org Subject: Re: [BioC] Course: Learning R / Bioconductor for Sequence Analysis, Seattle, WA Oct 27-29 Seconded! An online version of the course would be indispensable. ...................................................................... ................................ Dale Richardson, Ph.D. Laboratory of Plant Molecular Biology Instituto Gulbenkian de Ci�ncia Rua da Quinta Grande, 6 2780-156 Oeiras Portugal http://www.igc.gulbenkian.pt Tel: +351 967 992 816 Email: drichardson@igc.gulbenkian.pt On 15/09/2014, at 17:27, Son Pham <spham@salk.edu> wrote: > Thanks Martin for offering the course. It's fantastics -- and if it would > be an online course, like coursera, it will also be great for a lot of > distant people. > > -Son. > > > > > > Son Pham, Ph.D > cseweb.ucsd.edu/~kspham/ > > On Mon, Sep 15, 2014 at 7:13 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: > >> Course: Learning R / Bioconductor for Sequence Analysis >> >> Dates: October 27-29, Seattle, WA. >> >> Registration: https://register.bioconductor.org/Seattle-Oct-2014/ >> >> This course is directed at beginning and intermediate users who would like >> an introduction to the analysis and comprehension of high- throughput >> sequence data using R and Bioconductor. Day 1 focuses on learning essential >> background: an introduction to the R programming language; central concepts >> for effective use of Bioconductor software; and an overview of >> high-throughput sequence analysis work flows. Day 2 emphasizes use of >> Bioconductor for specific tasks: an RNA-seq differential expression work >> flow; exploratory, machine learning, and other statistical tasks; gene set >> enrichment; and annotation. Day 3 transitions to understanding effective >> approaches for managing larger challenges: strategies for working with >> large data, writing re-usable functions, developing reproducible reports >> and work flows, and visualizing results. The course combines lectures with >> extensive hands-on practicals; students are required to bring a laptop with >> wireless internet access and a modern version of the Chrome or Safari web >> browser. >> -- >> Computational Biology / Fred Hutchinson Cancer Research Center >> 1100 Fairview Ave. N. >> PO Box 19024 Seattle, WA 98109 >> >> Location: Arnold Building M1 B861 >> Phone: (206) 667-2793 >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: http://news.gmane.org/gmane. >> science.biology.informatics.conductor >> > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor@r-project.org https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
ADD REPLYlink written 3.2 years ago by Thuy Do20
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