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SeqShop: May 2015

219 bytes removed, 10:40, 22 May 2015
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Sequence Analysis Workshop May 18-22, 2015: http://seqshop.sph.umich.edu/
Workshop ScheduleCourse Agenda: [[Mediahttp:SeqShopScheduleDec2014//seqshop.pdf|SeqShopScheduleDec2014sph.pdf]]umich.edu/index.php/course-agenda
{| class="wikitable" cellpadding=5
|-
! style="background:#ABE" | Monday !! stylecolspan="background:#ABE3" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''Monday
|-
|| [[Media! style="background:2014.12_-_Workshop_Introduction.pdf#ABE" |Brief Introduction and Background]]| [[MediaLecture !! style="background:Dec2014 SeqShop - Linux.pdf#ABE" |SeqShop: Practical Intro]]|rowspan!! style="3background:#ABE" | ''[[SeqShop: Aligning Your Own Genome, December 2014|SeqShop: Aligning Your Own Genome]]Analysis''
|-
|| [[Media:Sequencing symposium 20142015.05 - Workshop Intro.pptxpdf|Welcome/Design of Human Genetic Studies]]| [[Media:May2015 SeqShop - Linux.pdf|SeqShop: Quick intro to Linux]]|rowspan="2" | ''[[SeqShop: Aligning Your Own Genome, May 2015|SeqShop: Aligning Your Own Genome]]''
|-
|| [[Media:Mapping and assemblyDec2014assembly May2015.pdf|Sequence Mapping and Assembly]]
| [[SeqShop: Sequence Mapping and Assembly Practical, May 2015|SeqShop: Sequence Mapping and Assembly Practical]]
Macrogen Guest Lecture
|-
! style="background:#ABE" | Tuesday !! stylecolspan="background:#ABE3" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''Tuesday
|-
! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''|-| [[Media:seqshop_dec14_day2_snp_lecture_v2seqshop_may_2015_day2_snp_lecture_v2.pdf|Variant Calling and Filtering for SNPs]]
| [[SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015|SeqShop: Variant Calling and Filtering for SNPs Practical]]
[http://bam.iobio.io iobio: Visualizing BAM statistics]| rowspan="2"|''[[SeqShop: Calling Your Own Genome, December 2014May 2015|SeqShop: Calling Your Own Genome]]''|-| [[Media:Analysis of SV May2015.pdf|Analysis of Structural Variation - Part 1]][[Media:May2015 Analysis of SV part 2.pdf|Analysis of Structural Variation - Part 2]]| [[SeqShop: Analysis of Structural Variation Practical, May 2015|SeqShop: Analysis of Structural Variation Practical]]
|-
! style="background:#ABE" colspan="3" | Wednesday|-! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''|-| [[Media:Seqshop 2015 non-SNP variation.pdf|Variant Calling and Filtering for INDELs]] [[Media:seqshop_2015_day3_indel_assembly.pdf|Variant Calling and Filtering for INDELsMore Lessons on Indels + De-novo Assembly Methods]] 
| [[SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015|SeqShop: Variant Calling and Filtering for INDELs Practical]]
|''[[SeqShop: Calling Your Own Genome, May 2015|SeqShop: Calling Your Own Genome]]''
|-
! style="background:#ABE" | Wednesday !! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! stylecolspan="background:#ABE3" | ''Own Genome Analysis''Thursday
|-
|| [[Media:Dec2014 Analysis of SV.pdf|Analysis of Structural Variation - Part 1]][[Media:Dec2014 Analysis of SV part 2.pdf|Analysis of Structural Variation - Part 2]]| [[SeqShop: Analysis of Structural Variation Practical, May 2015|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" | ''Own Genome Analysis''
|-
| [[Media:Stratification.pptx|Estimates of Genetic Ancestry]]
|[[SeqShop: Estimates of Genetic Ancestry Practical, May 2015| SeqShop: Estimates of Genetic Ancestry Practical]]
|
| [[Media:DecWorshop2014-ancestry.pdf|Estimates of Genetic Ancestry]]
|[[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]]''
|-
|| [[Media:Seqshop genetic association analysis 141211150521.pdfpptx|Genetic Association Analysis]]
|[[SeqShop: Association Analysis, May 2015| SeqShop: Association Analysis]]
| ''[[SeqShop: Calling Your Own Genome, May 2015|SeqShop: Calling Your Own Genome]]''
|-
! style="background:#ABE" | Friday !! stylecolspan="background:#ABE3" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''Friday
|-
! style="background:#ABE" | Lecture !! style="background:#ABE" | Practical !! style="background:#ABE" | ''Own Genome Analysis''
|-
| [[Media:2015.05_-_Workshop_Closing.pdf|Summary]]
|
||[[SeqShop: Genetic Association Analysis Practical, December 2014|SeqShop: Genetic Association Analysis Practical]]|rowspan="2"|''[[SeqShop: Ancestry On Your Own Genome, December 2014May 2015|SeqShop: Ancestry On Your Own Genome]]''''[[SeqShop: Calling Your Own Genome, December 2014|SeqShop: Calling Your Own Genome]]''
|-
|
| [[Media:2014.12_-_Workshop_Closing.pdf|Example of a Whole Genome Association Study]]
|
|}
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