Off-line spectraviewer
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Dear all, Currently I'm dealing with a lot of requests from users of our fluorescent microscopes to check compatibility of imaging systems with different dyes. So far I was using online spectraviewers (e.g. chroma or life technologies) they work quite well, but have a lot of limitations (not all filters and fluorophores presented etc). Thus I'd like to ask if anyone came across or actually using an off-line software solution for that? I guess I'm looking for simple spectra viewer with big database of spectral characteristics of different filters/fluorophores and ability to add and store my own spectra (for custom filters etc). Thanks in advance for advices! |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** http://works.bepress.com/gmcnamara/9/ Zeiss, Chroma and others have "apps for that" - see iThingy store. From my comment on Carl Boswell's and my 2006 article's PubMed entry (readers may need to be logged in to My NCBI to see Comments): http://www.ncbi.nlm.nih.gov/pubmed?term=mcnamara%20boswell http://www.ncbi.nlm.nih.gov/pubmed/?term=16969821 The PubSpectra dataset of over 2,000 fluorescence spectra is now (2013) downloadable in the Excel XLSX file inside a zip archive downloadable from http://works.bepress.com/gmcnamara/9/ The Boswell spectra graphing site described in this paper is defunct and has been replaced by Urs Utzinger and Carl Boswell's University of Arizona Spectra site http://www.spectra.arizona.edu/ Urs has added additional spectra - especially 2-photon excitation spectra - to his web site. Several vendors have spectral graphing sites, including (but not limited to) http://www.semrock.com/searchlight-welcome.aspx http://www.chroma.com/spectra-viewer LifeTech/Invitrogen/Molecular Probes http://www.lifetechnologies.com/us/en/home/life-science/cell-analysis/labeling-chemistry/fluorescence-spectraviewer.html instructions: http://www.lifetechnologies.com/us/en/home/references/molecular-probes-the-handbook/technical-notes-and-product-highlights/using-the-fluorescence-spectraviewer.html Leica http://www.leica-microsystems.com/fluoscout/ (filter sets are from Chroma, so may be simpler to use Chroma’s web site) BD Biosciences http://www.bdbiosciences.com/research/multicolor/spectrum_viewer/index.jsp Most of the confocal microscope companies have spectral viewers in their software. Zeiss ZEN acknowledges PubSpectra as the source of data. Re-using data: This 2006 paper includes a section, Data Is Not Copyrightable During the course of developing this data, one of us had an epiphany while reading in Lessig (18) about a U.S. Supreme Court decision: data is not subject to copyright (14). Text and commentary about Feist can be found on many legal web sites by doing a Google search. Indeed, the broad availability of the text of Supreme Court decisions is because they are not subject to copyright. The Feist decision reaffirmed the U.S. Copyright act of 1976 that "there can be no copyright in facts". The basis for the Feist decision can be found in the U.S. Constitution. 14. Feist Publications, Inc. v. Rural Tel. Serv. Co. 1991;499 U.S. 340. 18. Lessig L. The Future of Ideas. New York: Random House; 2001. p 368. For those interested in reference 17, Multi-Probe Microscopy, it is available for download at http://works.bepress.com/gmcnamara/2/ Now in 2013, I want to reinforce in this PubMed Comment, that: 1. Data is not copyrightable (in the United States). 2. I encourage re-use of PubSpectra instead of you starting from scratch. 3. If anyone wants to "take over" adding data, please go ahead and do so. I would love for someone to find money and organizational skills to set up a village in India or China - or downtown Troy NY or Detroit MI - to hire people to unscan spectra graphs, and add it to "New PubSpectra". Enjoy, George On 11/19/2013 7:48 AM, Anton Kamnev wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Dear all, > > Currently I'm dealing with a lot of requests from users of our fluorescent > microscopes to check compatibility of imaging systems with different dyes. > So far I was using online spectraviewers (e.g. chroma or life technologies) > they work quite well, but have a lot of limitations (not all filters and > fluorophores presented etc). > > Thus I'd like to ask if anyone came across or actually using an off-line > software solution for that? I guess I'm looking for simple spectra viewer > with big database of spectral characteristics of different > filters/fluorophores and ability to add and store my own spectra (for custom > filters etc). > > Thanks in advance for advices! > > -- George McNamara, Ph.D. Single Cells Analyst L.J.N. Cooper Lab University of Texas M.D. Anderson Cancer Center Houston, TX 77054 Tattletales http://works.bepress.com/gmcnamara/26/ |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** I just received an iPad as part of a Mobile Computing pilot project -- industry is rarely an early adopter of new IT technologies! -- and I was disappointed to discover that the SpectraViewer iPad app from LifeTechnologies no longer works: It hasn't been updated since February 2011, which probably explains it. Sadly, this seems to be the state of several of their Apps, although they are still published on their website. Emmanuel -- [hidden email] Tel. +32 14 64 1586 -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of George McNamara Sent: Tuesday, 19 November, 2013 15:01 To: [hidden email] Subject: Re: Off-line spectraviewer ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** http://works.bepress.com/gmcnamara/9/ Zeiss, Chroma and others have "apps for that" - see iThingy store. From my comment on Carl Boswell's and my 2006 article's PubMed entry (readers may need to be logged in to My NCBI to see Comments): http://www.ncbi.nlm.nih.gov/pubmed?term=mcnamara%20boswell http://www.ncbi.nlm.nih.gov/pubmed/?term=16969821 The PubSpectra dataset of over 2,000 fluorescence spectra is now (2013) downloadable in the Excel XLSX file inside a zip archive downloadable from http://works.bepress.com/gmcnamara/9/ The Boswell spectra graphing site described in this paper is defunct and has been replaced by Urs Utzinger and Carl Boswell's University of Arizona Spectra site http://www.spectra.arizona.edu/ Urs has added additional spectra - especially 2-photon excitation spectra - to his web site. Several vendors have spectral graphing sites, including (but not limited to) http://www.semrock.com/searchlight-welcome.aspx http://www.chroma.com/spectra-viewer LifeTech/Invitrogen/Molecular Probes http://www.lifetechnologies.com/us/en/home/life-science/cell-analysis/labeling-chemistry/fluorescence-spectraviewer.html instructions: http://www.lifetechnologies.com/us/en/home/references/molecular-probes-the-handbook/technical-notes-and-product-highlights/using-the-fluorescence-spectraviewer.html Leica http://www.leica-microsystems.com/fluoscout/ (filter sets are from Chroma, so may be simpler to use Chroma's web site) BD Biosciences http://www.bdbiosciences.com/research/multicolor/spectrum_viewer/index.jsp Most of the confocal microscope companies have spectral viewers in their software. Zeiss ZEN acknowledges PubSpectra as the source of data. Re-using data: This 2006 paper includes a section, Data Is Not Copyrightable During the course of developing this data, one of us had an epiphany while reading in Lessig (18) about a U.S. Supreme Court decision: data is not subject to copyright (14). Text and commentary about Feist can be found on many legal web sites by doing a Google search. Indeed, the broad availability of the text of Supreme Court decisions is because they are not subject to copyright. The Feist decision reaffirmed the U.S. Copyright act of 1976 that "there can be no copyright in facts". The basis for the Feist decision can be found in the U.S. Constitution. 14. Feist Publications, Inc. v. Rural Tel. Serv. Co. 1991;499 U.S. 340. 18. Lessig L. The Future of Ideas. New York: Random House; 2001. p 368. For those interested in reference 17, Multi-Probe Microscopy, it is available for download at http://works.bepress.com/gmcnamara/2/ Now in 2013, I want to reinforce in this PubMed Comment, that: 1. Data is not copyrightable (in the United States). 2. I encourage re-use of PubSpectra instead of you starting from scratch. 3. If anyone wants to "take over" adding data, please go ahead and do so. I would love for someone to find money and organizational skills to set up a village in India or China - or downtown Troy NY or Detroit MI - to hire people to unscan spectra graphs, and add it to "New PubSpectra". Enjoy, George On 11/19/2013 7:48 AM, Anton Kamnev wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Dear all, > > Currently I'm dealing with a lot of requests from users of our > fluorescent microscopes to check compatibility of imaging systems with different dyes. > So far I was using online spectraviewers (e.g. chroma or life > technologies) they work quite well, but have a lot of limitations (not > all filters and fluorophores presented etc). > > Thus I'd like to ask if anyone came across or actually using an > off-line software solution for that? I guess I'm looking for simple > spectra viewer with big database of spectral characteristics of > different filters/fluorophores and ability to add and store my own > spectra (for custom filters etc). > > Thanks in advance for advices! > > -- George McNamara, Ph.D. Single Cells Analyst L.J.N. Cooper Lab University of Texas M.D. Anderson Cancer Center Houston, TX 77054 Tattletales http://works.bepress.com/gmcnamara/26/ |
 
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George McNamara |
Re: Off-line spectraviewer ... try Zeiss LightLab
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** try Zeiss LightLab ... uses PubSpectra data, as does the ZEN Smart Setup http://microscopy.zeiss.com/microscopy/en_de/products/microscope-software/light-lab.html On 11/20/2013 9:36 AM, Gustin, Emmanuel [JRDBE] wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > I just received an iPad as part of a Mobile Computing pilot project -- industry is rarely an early adopter of new IT technologies! -- and I was disappointed to discover that the SpectraViewer iPad app from LifeTechnologies no longer works: It hasn't been updated since February 2011, which probably explains it. > > Sadly, this seems to be the state of several of their Apps, although they are still published on their website. > > Emmanuel > > > -- > [hidden email] > Tel. +32 14 64 1586 > > > -----Original Message----- > From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of George McNamara > Sent: Tuesday, 19 November, 2013 15:01 > To: [hidden email] > Subject: Re: Off-line spectraviewer > > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > > http://works.bepress.com/gmcnamara/9/ > > Zeiss, Chroma and others have "apps for that" - see iThingy store. > > From my comment on Carl Boswell's and my 2006 article's PubMed entry (readers may need to be logged in to My NCBI to see Comments): > > http://www.ncbi.nlm.nih.gov/pubmed?term=mcnamara%20boswell > > http://www.ncbi.nlm.nih.gov/pubmed/?term=16969821 > > The PubSpectra dataset of over 2,000 fluorescence spectra is now > (2013) downloadable in the Excel XLSX file inside a zip archive > downloadable from > > http://works.bepress.com/gmcnamara/9/ > > The Boswell spectra graphing site described in this paper is defunct > and has been replaced by Urs Utzinger and Carl Boswell's University > of Arizona Spectra site > > http://www.spectra.arizona.edu/ > > Urs has added additional spectra - especially 2-photon excitation > spectra - to his web site. > > Several vendors have spectral graphing sites, including (but not > limited to) > > http://www.semrock.com/searchlight-welcome.aspx > > http://www.chroma.com/spectra-viewer > > LifeTech/Invitrogen/Molecular Probes > http://www.lifetechnologies.com/us/en/home/life-science/cell-analysis/labeling-chemistry/fluorescence-spectraviewer.html > instructions: > http://www.lifetechnologies.com/us/en/home/references/molecular-probes-the-handbook/technical-notes-and-product-highlights/using-the-fluorescence-spectraviewer.html > > Leica http://www.leica-microsystems.com/fluoscout/ (filter sets are > from Chroma, so may be simpler to use Chroma's web site) > > BD Biosciences > http://www.bdbiosciences.com/research/multicolor/spectrum_viewer/index.jsp > > Most of the confocal microscope companies have spectral viewers in > their software. Zeiss ZEN acknowledges PubSpectra as the source of data. > > Re-using data: This 2006 paper includes a section, > > Data Is Not Copyrightable During the course of developing this data, > one of us had an epiphany while reading in Lessig (18) about a U.S. > Supreme Court decision: data is not subject to copyright (14). Text > and commentary about Feist can be found on many legal web sites by > doing a Google search. Indeed, the broad availability of the text of > Supreme Court decisions is because they are not subject to > copyright. The Feist decision reaffirmed the U.S. Copyright act of > 1976 that "there can be no copyright in facts". The basis for the > Feist decision can be found in the U.S. Constitution. 14. Feist > Publications, Inc. v. Rural Tel. Serv. Co. 1991;499 U.S. 340. 18. > Lessig L. The Future of Ideas. New York: Random House; 2001. p 368. > For those interested in reference 17, Multi-Probe Microscopy, it is > available for download at http://works.bepress.com/gmcnamara/2/ > > Now in 2013, I want to reinforce in this PubMed Comment, that: 1. > Data is not copyrightable (in the United States). 2. I encourage > re-use of PubSpectra instead of you starting from scratch. 3. If > anyone wants to "take over" adding data, please go ahead and do so. > I would love for someone to find money and organizational skills to > set up a village in India or China - or downtown Troy NY or Detroit > MI - to hire people to unscan spectra graphs, and add it to "New > PubSpectra". > > > Enjoy, > > George > > > > On 11/19/2013 7:48 AM, Anton Kamnev wrote: > >> ***** >> To join, leave or search the confocal microscopy listserv, go to: >> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >> ***** >> >> Dear all, >> >> Currently I'm dealing with a lot of requests from users of our >> fluorescent microscopes to check compatibility of imaging systems with different dyes. >> So far I was using online spectraviewers (e.g. chroma or life >> technologies) they work quite well, but have a lot of limitations (not >> all filters and fluorophores presented etc). >> >> Thus I'd like to ask if anyone came across or actually using an >> off-line software solution for that? I guess I'm looking for simple >> spectra viewer with big database of spectral characteristics of >> different filters/fluorophores and ability to add and store my own >> spectra (for custom filters etc). >> >> Thanks in advance for advices! >> >> >> > > -- George McNamara, Ph.D. Single Cells Analyst L.J.N. Cooper Lab University of Texas M.D. Anderson Cancer Center Houston, TX 77054 Tattletales http://works.bepress.com/gmcnamara/26/ |
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