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Advgenemap2017

1,714 bytes added, 20:07, 5 January 2017
/* Lecture Handouts & Practical Exercises */
====Shamil Sunyaev====
 
===Software===
* [http://sites.stat.psu.edu/~yuzhang/ BEAM3]
* [http://cassi.cas.org/ CASSI]
* [http://cnsgenomics.com/software/gcta/mlmassoc.html GCTA-MLMA]
* [http://www.genabel.org/ GenABEL]
* [http://genome.sph.umich.edu/wiki/GotCloud GotCloud]
* [https://cran.r-project.org/web/packages/ORMDR/index.html ORMDR]
* [http://csg.sph.umich.edu/abecasis/MACH/ MACH]
* [http://www.bios.unc.edu/research/genomic_software/Matrix_eQTL/ Matrix eQTL]
* [http://csg.sph.umich.edu/abecasis/metal/ METAL]
* [http://genome.sph.umich.edu/wiki/Minimac3 Minimac]
* [http://pngu.mgh.harvard.edu/~purcell/plink/ PLINK]
* [https://github.com/hakyimlab/PrediXcan PrediXCan]
* [https://www.r-project.org/ R]
* [http://genome.sph.umich.edu/wiki/RAREMETAL RareMetal]
* [http://genome.sph.umich.edu/wiki/RAREMETALWORKER RareMetalWorker]
* [http://www.bioinformatics.org/spower/ SEQPower]
* [http://varianttools.sourceforge.net/Association/HomePage VAT]
 
===Links===
* [http://ihg.helmholtz-muenchen.de/cgi-bin/hw/power2.pl Armitrage Test for Trends]
* [http://agvgd.iarc.fr/ AlignGVGD]
* [http://mendel.stanford.edu/SidowLab/downloads/gerp/index.html GERP]
* [http://www.genmapp.org/ GenMAPP]
* [http://mendel.stanford.edu/SidowLab/downloads/mapp/index.html MAPP]
* [http://mips.helmholtz-muenchen.de/proj/ppi/ MIPS] .
* [http://www.mutationtaster.org/ MutationTaster]
* [http://mutpred.mutdb.org/ MutPred]
* [http://www.rcsb.org/ PDB]
* [http://pfam.sanger.ac.uk/ Pfam]
* [http://genetics.bwh.harvard.edu/pph2 Polyphen-2]
* [http://sift.jcvi.org/ SIFT]
* [http://smart.embl.de/ SMART]
* [http://www.rostlab.org/services/snap/ SNAP]
* [http://snps3d.org/ SNPs3D]
* [http://string.embl.de/ STRING]
* [http://www.uniprot.org/ UniProt]
 
 
This course is supported by a grant from the National Institute of Health (NIH) - National Human Genome Research Institute (NHGRI).
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