SeqShop: December 2014: Difference between revisions

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! style="background:#ABE" | Monday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical
! style="background:#ABE" | Monday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
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| [[Media:2014.12_-_Workshop_Introduction.pdf|Brief Introduction and Background]]
| [[Media:2014.12_-_Workshop_Introduction.pdf|Brief Introduction and Background]]
| [[Media:Dec2014 SeqShop - Linux.pdf|SeqShop: Practical Intro]]
| [[Media:Dec2014 SeqShop - Linux.pdf|SeqShop: Practical Intro]]
|rowspan="3" | ''[[SeqShop: Aligning Your Own Genome, December 2014|SeqShop: Aligning Your Own Genome]]''
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| [[Media:Sequencing symposium 2014.pptx|Design of Human Genetic Studies]]
| [[Media:Sequencing symposium 2014.pptx|Design of Human Genetic Studies]]
| [[SeqShop: Sequence Mapping and Assembly Practical, December 2014|SeqShop: Sequence Mapping and Assembly Practical]]
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| [[Media:Mapping and assemblyDec2014.pdf|Sequence Mapping and Assembly]]
| [[Media:Mapping and assemblyDec2014.pdf|Sequence Mapping and Assembly]]
| [http://iobio.io Live experimentation with IOBIO]
| [[SeqShop: Sequence Mapping and Assembly Practical, December 2014|SeqShop: Sequence Mapping and Assembly Practical]]
|-
[http://iobio.io Live experimentation with IOBIO]
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|''[[SeqShop: Aligning Your Own Genome, December 2014|SeqShop: Aligning Your Own Genome]]''
|-
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! style="background:#ABE" | Tuesday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical
! style="background:#ABE" | Tuesday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
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| [[Media:seqshop_dec14_day2_snp_lecture_v2.pdf|Variant Calling and Filtering for SNPs]]
| [[Media:seqshop_dec14_day2_snp_lecture_v2.pdf|Variant Calling and Filtering for SNPs]]
| [[SeqShop: Variant Calling and Filtering for SNPs Practical, December 2014|SeqShop: Variant Calling and Filtering for SNPs Practical]]
| [[SeqShop: Variant Calling and Filtering for SNPs Practical, December 2014|SeqShop: Variant Calling and Filtering for SNPs Practical]]
| rowspan="2"|''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
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| [[Media:TBD|Variant Calling and Filtering for INDELs]]
| [[Media:Variant Calling and Filtering for INDELs.pdf|Variant Calling and Filtering for INDELs]]
| [[SeqShop: Variant Calling and Filtering for INDELs Practical, December 2014|SeqShop: Variant Calling and Filtering for INDELs Practical]]
| [[SeqShop: Variant Calling and Filtering for INDELs Practical, December 2014|SeqShop: Variant Calling and Filtering for INDELs Practical]]
|-
|-
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! style="background:#ABE" | Wednesday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
|
| ''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
|-
! style="background:#ABE" | Wednesday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical
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| [[Media:TBD|Analysis of Structural Variation - Part 1]]
| [[Media:Dec2014 Analysis of SV.pdf|Analysis of Structural Variation - Part 1]]
[[Media:TBD|Analysis of Structural Variation - Part 2]]
[[Media:Dec2014 Analysis of SV part 2.pdf|Analysis of Structural Variation - Part 2]]
| [[SeqShop: Analysis of Structural Variation Practical, December 2014|SeqShop: Analysis of Structural Variation Practical]]
| [[SeqShop: Analysis of Structural Variation Practical, December 2014|SeqShop: Analysis of Structural Variation Practical]]
|''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
|-
|-
! style="background:#ABE" | Thursday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical
! style="background:#ABE" | Thursday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
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| [[Media:TBD|Estimates of Genetic Ancestry]]
| [[Media:DecWorshop2014-ancestry.pdf|Estimates of Genetic Ancestry]]
| [[SeqShop: Estimates of Genetic Ancestry Practical, December 2014| SeqShop: Estimates of Genetic Ancestry Practical]]
|[[SeqShop: Estimates of Genetic Ancestry Practical, December 2014| SeqShop: Estimates of Genetic Ancestry Practical]]
| rowspan="2"|''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
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| [[Media:TBD|Genetic Association Analysis]]
| [[Media:Seqshop genetic association analysis 141211.pdf|Genetic Association Analysis]]
| [[SeqShop: Genetic Association Analysis Practical, December 2014|SeqShop: Genetic Association Analysis Practical]]
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! style="background:#ABE" | Friday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
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| [[SeqShop: Ancestry On Your Own Genome, December 2014|SeqShop: Ancestry On Your Own Genome]]
|[[SeqShop: Genetic Association Analysis Practical, December 2014|SeqShop: Genetic Association Analysis Practical]]
|-
|rowspan="2"|''[[SeqShop: Ancestry On Your Own Genome, December 2014|SeqShop: Ancestry On Your Own Genome]]''
! style="background:#ABE" | Friday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical
''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
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| [[Media:TBD|Example of a Whole Genome Association Study]]
| [[Media:2014.12_-_Workshop_Closing.pdf|Example of a Whole Genome Association Study]]
| ''[[SeqShop: Friday - Practicing what we learned, December 2014| SeqShop: Friday - Practicing what we learned]]''
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Latest revision as of 12:17, 18 December 2014

Sequence Analysis Workshop December 8-12, 2014: http://seqshop.sph.umich.edu/

Workshop Schedule: SeqShopScheduleDec2014.pdf


Monday Lecture Practical Own Genome Analysis
Brief Introduction and Background SeqShop: Practical Intro SeqShop: Aligning Your Own Genome
Design of Human Genetic Studies
Sequence Mapping and Assembly SeqShop: Sequence Mapping and Assembly Practical

Live experimentation with IOBIO

Tuesday Lecture Practical Own Genome Analysis
Variant Calling and Filtering for SNPs SeqShop: Variant Calling and Filtering for SNPs Practical SeqShop: Calling Your Own Genome
Variant Calling and Filtering for INDELs SeqShop: Variant Calling and Filtering for INDELs Practical
Wednesday Lecture Practical Own Genome Analysis
Analysis of Structural Variation - Part 1

Analysis of Structural Variation - Part 2

SeqShop: Analysis of Structural Variation Practical SeqShop: Calling Your Own Genome
Thursday Lecture Practical Own Genome Analysis
Estimates of Genetic Ancestry SeqShop: Estimates of Genetic Ancestry Practical SeqShop: Calling Your Own Genome
Genetic Association Analysis
Friday Lecture Practical Own Genome Analysis
SeqShop: Genetic Association Analysis Practical SeqShop: Ancestry On Your Own Genome

SeqShop: Calling Your Own Genome

Example of a Whole Genome Association Study
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