Difference: CemCourseMaterials14 (23 vs. 24)

Revision 2409 Dec 2014 - Main.BillRice

 
META TOPICPARENT name="CemCourseGroup"
Contents

Player required for arf video files

Lectures

Structure Validation and Fitting - Dec. 9

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Helical Processing

  • Lecture
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2D Crystallography II - Nov. 18

2D Crystallography I - Nov. 11

Single Particle III - Nov 4 - Joachim Frank (Columbia)

Single Particle II - Oct 28 - Joachim Frank (Columbia)

Single Particle I - Oct 21 - Joachim Frank (Columbia)

Tomography II - Oct 14 - David Stokes (NYU/NYSBC)

  • Lecture

Tomography I - Oct 7 - David Stokes (NYU/NYSBC)

Fourier Series, Fourier Transform, Correlation, Convolution - Sept 30 - Bill Rice (NYSBC)

Intro to EM Optics, image formation and Diffraction - Sept 23 - David Stokes (NYU/NYSBC)

Practicals

  • All data and software are on the supplied USB sticks
  • Instructions are here; please print out and bring to class Thursday

Tomography Demos

Single Particle Demos

Helical Demo

Molecular Fitting Demo

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  • Set ALLOWTOPICVIEW =

-- BillRice - 21 Sep 2014

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META FILEATTACHMENT attr="" autoattached="1" comment="Molecular Fittings - Ahmed et al, JSB 2012" date="1417749955" name="J._Struct._Biol._2012_Ahmed.pdf" path="J._Struct._Biol._2012_Ahmed.pdf" size="1440703" user="Main.DannyHo" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="course logistics" date="1411487228" name="CryoEM-Course-logistics.doc" path="CryoEM-Course-logistics.doc" size="36864" user="Main.EdEng" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Nature Protocols S4" date="1411301202" name="nprot.2008.156-S4.pdf" path="nprot.2008.156-S4.pdf" size="24949" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Nature Protocols S1" date="1411301102" name="nprot.2008.156-S1.pdf" path="nprot.2008.156-S1.pdf" size="4990385" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="powerpoint of fft lecture" date="1412132447" name="fft_lecture-sept30_2014.pptx" path="fft_lecture-sept30_2014.pptx" size="16248705" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="Validation lecture" date="1418171975" name="validation.pdf" path="validation.pdf" size="1711547" user="Main.BillRice" version="1"
 
META FILEATTACHMENT attr="" autoattached="1" comment="join tomogram demo" date="1411303057" name="join_demo_2014.pdf" path="join_demo_2014.pdf" size="4051662" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="" date="1417726358" name="helical_demo_1.pdf" path="helical_demo_1.pdf" size="2389231" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="video of Tomography I" date="1413315371" name="CEM_course_2014_lecture_3_Tomography-20141007_2001-1.arf" path="CEM_course_2014_lecture_3_Tomography-20141007_2001-1.arf" size="255161917" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Nature Portocols paper" date="1411300831" name="nprot.2008.156.pdf" path="nprot.2008.156.pdf" size="3383115" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="Single Particle Lecture 1" date="1414537834" name="NYSBC_2014_1.ppt" path="NYSBC_2014_1.ppt" size="23072768" user="Main.BillRice" version="1"
 
META FILEATTACHMENT attr="" autoattached="1" comment="Helical Reconstruction lecture slides" date="1418172197" name="Helical3d_reconst_v3.pdf" path="Helical3d_reconst_v3.pdf" size="5095698" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="notes on ref based alignment" date="1414696759" name="notes-ref_based_2014.pdf" path="notes-ref_based_2014.pdf" size="62496" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Tomography I lecture" date="1412719549" name="NYSBC-EM3-tomography-2014.pptx" path="NYSBC-EM3-tomography-2014.pptx" size="16899636" user="Main.DavidStokes" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Micrographs for SP practical 3 (needed by mac people)" date="1415176808" name="micrographs.zip" path="micrographs.zip" size="255492671" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="instructions for EMAN2 demo" date="1415300832" name="eman2_demo.pdf" path="eman2_demo.pdf" size="1785498" user="Main.BillRice" version="2"
META FILEATTACHMENT attr="" autoattached="1" comment="" date="1411496912" name="NYSBC-EM1-intro-optics14.ppt" path="NYSBC-EM1-intro-optics14.ppt" size="41782784" user="Main.DavidStokes" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="audio of fft lecture" date="1412719576" name="fft_lecture.mp3" path="fft_lecture.mp3" size="106645264" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="Etomo demo" date="1411302893" name="etomo_demo_2014.pdf" path="etomo_demo_2014.pdf" size="4470217" user="Main.BillRice" version="1"
 
META FILEATTACHMENT attr="" autoattached="1" comment="Lecture slides: Fitting Methods" date="1418149815" name="fitting_S.pptx" path="fitting_S.pptx" size="11076279" user="Main.DannyHo" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="MDFF - Trabuco et al, Structure 2008" date="1417749877" name="Structure_2008_Trabuco.pdf" path="Structure_2008_Trabuco.pdf" size="1735706" user="Main.DannyHo" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="2d crystal lecture 2" date="1417558990" name="2DX_EM_class_1-20141111_2103-1.arf" path="2DX_EM_class_1-20141111_2103-1.arf" size="253608617" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="video of FFT lecture" date="1412139438" name="CEM_2014_lecture_2_FFT-20140930_2008-1.arf" path="CEM_2014_lecture_2_FFT-20140930_2008-1.arf" size="257526200" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="ref bias demo" date="1414696780" name="ref_bias_2014.pdf" path="ref_bias_2014.pdf" size="73733" user="Main.BillRice" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="Single Particle Lecture 2" date="1414538098" name="NYSBC_2014-2.pptx" path="NYSBC_2014-2.pptx" size="20402100" user="Main.BillRice" version="1"
META FILEATTACHMENT attr="" autoattached="1" comment="Course questionnaire" date="1411487211" name="questionnaire.doc" path="questionnaire.doc" size="25600" user="Main.EdEng" version="1"
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META FILEATTACHMENT attr="" autoattached="1" comment="Files for Chimera Fitting practical workshop" date="1415293937" name="chimera_fitting_data.zip" path="chimera_fitting_data.zip" size="117140705" user="Main.DannyHo" version="1"
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META FILEATTACHMENT attachment="fitting_S.pptx" attr="" comment="Lecture slides: Fitting Methods" date="1418149815" name="fitting_S.pptx" path="fitting_S.pptx" size="11076279" stream="fitting_S.pptx" user="Main.DannyHo" version="1"
 
META FILEATTACHMENT attr="" autoattached="1" comment="Nature Protocols S3" date="1411301180" name="nprot.2008.156-S3.pdf" path="nprot.2008.156-S3.pdf" size="222608" user="Main.BillRice" version="1"
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