Difference: CemITApplications (1 vs. 15)

Revision 1525 Mar 2013 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

CemFibSEMProcessing -- noted on processing images collected with the dual beam microscope

Changed:
<
<
>
>

CemTomoMontage -- notes on processing montage tomograms using Protomo software

 

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

CemSparxNotes -- notes on using sparx

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

CemSingleParticleHelical -- notes and instructions for using Grigorieff's modification of Egelman's programs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

CemEndNote7 -- Geting EndNote? 7 to work in Word 2010

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 1418 Mar 2013 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

CemFibSEMProcessing -- noted on processing images collected with the dual beam microscope

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

CemSparxNotes -- notes on using sparx

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

CemSingleParticleHelical -- notes and instructions for using Grigorieff's modification of Egelman's programs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

Added:
>
>

CemEndNote7 -- Geting EndNote? 7 to work in Word 2010

 
  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 1320 Nov 2012 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Added:
>
>

CemFibSEMProcessing -- noted on processing images collected with the dual beam microscope

 

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

CemSparxNotes -- notes on using sparx

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

CemSingleParticleHelical -- notes and instructions for using Grigorieff's modification of Egelman's programs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 1217 Feb 2011 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

Added:
>
>

CemSparxNotes -- notes on using sparx

 

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

CemSingleParticleHelical -- notes and instructions for using Grigorieff's modification of Egelman's programs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 1125 Mar 2010 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

Added:
>
>

CemSingleParticleHelical -- notes and instructions for using Grigorieff's modification of Egelman's programs

 

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 1005 Feb 2010 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

Added:
>
>

CemExtractSerialEM -- Instructions for extracting a SerialEM .st file to a set of MRC files

 
  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 928 Jan 2010 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Changed:
<
<

CemRandomconicaltilt? -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

>
>

CemRandomConicalTilt -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

 

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 828 Jan 2010 - Main.BillRice

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Added:
>
>

CemRandomconicaltilt? -- scripts and instructions for doing a 3D reconstruction using the Random Conical Tilt technique

 

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 721 Jan 2010 - Main.DavidStokes

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

Changed:
<
<

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

>
>

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Unwin & Toyoshima Labs

 

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 618 Aug 2009 - Main.KdDerr

 
META TOPICPARENT name="CemIT"

IT resources at the CEMfac

Deleted:
<
<
 

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 518 Aug 2009 - Main.KdDerr

 
META TOPICPARENT name="CemIT"
Changed:
<
<		IT resources at the CEMfac
>
>

IT resources at the CEMfac

 
Deleted:
<
<
Interested in EM? Using CEMfac? Principles & Protocols CEMfac Equipment Seminars & Courses
CEMfac Home? CEM Introduction Microscope Schedule NYSBC Directory Cryo-EM public website
 

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

plotting CTF profile

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 429 Jul 2009 - Main.DavidStokes

 
META TOPICPARENT name="CemIT"
IT resources at the CEMfac
Interested in EM? Using CEMfac? Principles & Protocols CEMfac Equipment Seminars & Courses
CEMfac Home? CEM Introduction Microscope Schedule NYSBC Directory Cryo-EM public website

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

HelicalProcessing -- Bill's Tips on helical processing

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

Changed:
<
<

[[FileConversion][plotting CTF profile]

>
>

plotting CTF profile

 

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 329 Jul 2009 - Main.DavidStokes

 
META TOPICPARENT name="CemIT"
IT resources at the CEMfac
Interested in EM? Using CEMfac? Principles & Protocols CEMfac Equipment Seminars & Courses
CEMfac Home? CEM Introduction Microscope Schedule NYSBC Directory Cryo-EM public website

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

Added:
>
>

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

FsuTomograms -- processing of tomograms using FSU package

 

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

Changed:
<
<

AmiraLoad -- Loading images for viewing in Amira

>
>

AmiraLoad -- Loading images for viewing in Amira

Deleted:
<
<

FsuTomograms -- processing of tomograms using FSU package

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

 

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

Changed:
<
<

HelicalProcessing -- Tips on helical processing

>
>

HelicalProcessing -- Bill's Tips on helical processing

Added:
>
>

HelicalReconstruction -- David's step-by-step instructions on helical reconstruction using EmIP

 

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

[[FileConversion][plotting CTF profile]

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 229 Jul 2009 - Main.DavidStokes

 
META TOPICPARENT name="CemIT"
IT resources at the CEMfac
Interested in EM? Using CEMfac? Principles & Protocols CEMfac Equipment Seminars & Courses
CEMfac Home? CEM Introduction Microscope Schedule NYSBC Directory Cryo-EM public website

List of supported SoftWare

EmIP -- GUI for image processing

Changed:
<
<

Tomography

>
>
 
Added:
>
>

Tomography

 

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

Deleted:
<
<
 

AmiraLoad -- Loading images for viewing in Amira

Deleted:
<
<
 

FsuTomograms -- processing of tomograms using FSU package

Deleted:
<
<
 

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

Changed:
<
<

Single Particle

>
>
 
Added:
>
>

Single Particle

 

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

Deleted:
<
<
 

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

Deleted:
<
<
 

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Changed:
<
<

Helical Reconstruction

>
>
 
Changed:
<
<

HelicalProcessing -- Tips on helical processing

>
>

Helical Reconstruction

HelicalProcessing -- Tips on helical processing

 

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

Added:
>
>
 
Changed:
<
<

File Conversions etc.

>
>

File Conversions etc.

Deleted:
<
<
 

Instructions for MovieMaking

Deleted:
<
<
 

AmiraMovie -- Instructions for making a movie in Amira

Deleted:
<
<
 

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

Deleted:
<
<
 

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

Deleted:
<
<
 

[[FileConversion][plotting CTF profile]

Deleted:
<
<
 

ProjectorDisplay -- Instructions for A-11 computer projection display

Deleted:
<
<
 
  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

Revision 129 Jul 2009 - Main.DavidStokes

 
META TOPICPARENT name="CemIT"
IT resources at the CEMfac
Interested in EM? Using CEMfac? Principles & Protocols CEMfac Equipment Seminars & Courses
CEMfac Home? CEM Introduction Microscope Schedule NYSBC Directory Cryo-EM public website

List of supported SoftWare

EmIP -- GUI for image processing

Tomography

ImodNotes -- Notes for converting 3D MRC image stack to series of tiff files (eg for movies)

AmiraLoad -- Loading images for viewing in Amira

FsuTomograms -- processing of tomograms using FSU package

MontageNavigator -- hints on using the Navigator in SerialEM to create montages (alternative to low-dose searching)

Single Particle

SingleparticalCrystal -- processing of "bad" 2d crystals by single particle methods

SpiderRefinement -- scripts and instructions for doing reconstruction and refinement on the NYSBC cluster

CemEmanRefinement -- some notes on the "refine" command, taken from EMAN course 2007

Helical Reconstruction

HelicalProcessing -- Tips on helical processing

CemHelicalPrograms -- notes on compiling and using Helical Reconstruction programs from Toyoshima Lab

File Conversions etc.

Instructions for MovieMaking

AmiraMovie -- Instructions for making a movie in Amira

DigitalMicrograph2TIF -- Convert a bunch of digital micrograph files to TIFF format

DisplayDepths -- Mixing 8 and 24-bit display depths (useful for WEB, other older software that is 8-bit only)

[[FileConversion][plotting CTF profile]

ProjectorDisplay -- Instructions for A-11 computer projection display

  • Set ALLOWTOPICVIEW =

-- DavidStokes - 29 Jul 2009

View topic  |  History: r15 < r14 < r13 < r12  |  More topic actions...
 
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