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Gabriella Turek
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Fixed Gallery.md
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‎Gallery.md

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@@ -7,126 +7,95 @@ Here comes pictures of the OpenSPIM unit and data acquired on it.
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### Fruit fly
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{% include gallery-begin %}
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{% include gallery-video id="kZKHuKscKcQ" caption="
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Histone-YFP from gastrulation to beginning of muscle contraction from ventral,
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lateral and dorsal view
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" %}
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{% include gallery-video id="bdT1XK-0jCM" caption="
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Expression pattern of Csp-sGFP recorded with OpenSPIM
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" %}
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{% include gallery-video id="4dqakO8LYCA" caption="
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Drosophila blastoderm stage embryo - deconvolved
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" %}
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{% include gallery-video id="1Db_LumtHqk" caption="
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Drosophila blastoderm stage embryo - fused using content based fusion
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" %}
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{% include gallery-video id="BtsRl-3qHns" caption="
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*Drosophila* gastrulation timelapse 5 views every 6 minutes (HisYFP)
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" %}
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{% include gallery-video id="gXEFfSLd1Go" caption="
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*Drosophila* gastrulation timelapse 5 views every 5 minutes (HisYFP)
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" %}
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{% include gallery-video id="oMfPcSddBBI" caption="
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His-YFP embryo imaged from gastrulation until muscle contractions in late
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embryogenesis - ventral view
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" %}
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{% include gallery-image src="Single-slice.png" caption="
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A slice through a *Drosophila* embryo expressing HisYFP in all cells -
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unprocessed
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{% include gallery-video id="kZKHuKscKcQ" width="400" height="243" caption=" Histone-YFP from gastrulation to beginning of muscle contraction from ventral, lateral and dorsal view
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" %}
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{% include gallery-video id="bdT1XK-0jCM" width="400" height="243" caption="Expression pattern of Csp-sGFP recorded with OpenSPIM" %}
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{% include gallery-video id="4dqakO8LYCA" width="400" height="243" caption="Drosophila blastoderm stage embryo - deconvolved" %}
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{% include gallery-video id="1Db_LumtHqk" width="400" height="243" caption="Drosophila blastoderm stage embryo - fused using content based fusion" %}
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{% include gallery-video id="BtsRl-3qHns" width="400" height="243" caption="*Drosophila* gastrulation timelapse 5 views every 6 minutes (HisYFP)" %}
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{% include gallery-video id="gXEFfSLd1Go" width="400" height="243" caption="*Drosophila* gastrulation timelapse 5 views every 5 minutes (HisYFP)" %}
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{% include gallery-video id="oMfPcSddBBI" width="400" height="243" caption="His-YFP embryo imaged from gastrulation until muscle contractions in late
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embryogenesis - ventral view" %}
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{% include gallery-image src="Single-slice.png" width="400" height="243" caption=" A slice through a *Drosophila* embryo expressing HisYFP in all cells -
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unprocessed" %}
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{% include gallery-end %}
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### Zebrafish
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{% include gallery-begin %}
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{% include gallery-image src="Zebrafish_fused_max_gamma0.8.png" caption="
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Multi-position z-stack of a living 48 hpf Tg(Bactin:H2A-EGFP) zebrafish,
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stitched using the Grid/Collection Plugin in Fiji. Maximum intensity
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projection, gamma 0.8.
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" %}
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{% include gallery-video id="U1nvSWQ6pEs" caption="
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Multi-position z-stack of a living 48 hpf Tg(Bactin:H2A-EGFP) zebrafish,
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stitched using the Grid/Collection Plugin in Fiji. Stack video.
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" %}
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{% include gallery-video id="6gEDP5jWM38" caption="
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Beating heart of a 48 hpf Tg(cmlc2:EGFP) zebrafish. Left: overlay of
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transmitted light and fluorescence signal. Right: fluorescence signal.
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" %}
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{% include gallery-image src="Zebrafish_fused_max_gamma0.8.png" width="100%" caption="Multi-position z-stack of a living 48 hpf Tg(Bactin:H2A-EGFP) zebrafish, stitched using the Grid/Collection Plugin in Fiji. Maximum intensity projection, gamma 0.8." %}
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{% include gallery-video id="U1nvSWQ6pEs" width="400" height="243" caption="Multi-position z-stack of a living 48 hpf Tg(Bactin:H2A-EGFP) zebrafish, stitched using the Grid/Collection Plugin in Fiji. Stack video." %}
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{% include gallery-video id="6gEDP5jWM38" width="400" height="243" caption="Beating heart of a 48 hpf Tg(cmlc2:EGFP) zebrafish. Left: overlay of transmitted light and fluorescence signal. Right: fluorescence signal." %}
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{% include gallery-end %}
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### Volvox
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{% include gallery-begin %}
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{% include gallery-image src="FirstVolvoxProjection.jpg" caption="
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Z-projection of a stack through a colony of *Volvox carteri*, imaging
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chlorophyll autofluorescence. The colony is approximately 330 microns wide.
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" %}
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{% include gallery-image src="FirstVolvoxProjection.jpg" width="70%" caption="Z-projection of a stack through a colony of *Volvox carteri*, imaging chlorophyll autofluorescence. The colony is approximately 330 microns wide." %}
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{% include gallery-end %}
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## OpenSPIM concept configurations
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{% include gallery-begin %}
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{% include gallery-image src="1I_1D_OpenSPIM_03.jpg" caption="1I 1D or L-SPIM" %}
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{% include gallery-image src="2I_1D_OpenSPIM_02.jpg" caption="2I 1D or T-SPIM" %}
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{% include gallery-image src="2I_1D_OpenSPIM_farm_02.jpg" caption="T-SPIM FARM" %}
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{% include gallery-image src="2I_2D_OpenSPIM_02.jpg" caption="2I 2D or X-SPIM" %}
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{% include gallery-image src="1I_1D_OpenSPIM_03.jpg" width="70%" caption="1I 1D or L-SPIM" %}
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{% include gallery-image src="2I_1D_OpenSPIM_02.jpg" width="70%" caption="2I 1D or T-SPIM" %}
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{% include gallery-image src="2I_1D_OpenSPIM_farm_02.jpg" width="70%" caption="T-SPIM FARM" %}
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{% include gallery-image src="2I_2D_OpenSPIM_02.jpg" width="70%" caption="2I 2D or X-SPIM" %}
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{% include gallery-end %}
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## OpenSPIM in a suitcase artsy
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{% include gallery-begin %}
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{% include gallery-image src="OpenSPIM_suitcase_artsy1.jpg" caption="OpenSPIM in a suitcase 1" %}
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{% include gallery-image src="OpenSPIM_suitcase_artsy3.jpg" caption="OpenSPIM in a suitcase 2" %}
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{% include gallery-image src="SPIM_in_a_suitcase.jpg" caption="OpenSPIM in a suitcase 3" %}
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{% include gallery-image src="Openspim_curve.001.jpg" caption="OpenSPIM in a suitcase 4" %}
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{% include gallery-image src="OpenSPIM_suitcase_artsy1.jpg" width="70%" caption="OpenSPIM in a suitcase 1" %}
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{% include gallery-image src="OpenSPIM_suitcase_artsy3.jpg" width="70%" caption="OpenSPIM in a suitcase 2" %}
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{% include gallery-image src="SPIM_in_a_suitcase.jpg" width="70%" caption="OpenSPIM in a suitcase 3" %}
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{% include gallery-image src="Openspim_curve.001.jpg" width="70%" caption="OpenSPIM in a suitcase 4" %}
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{% include gallery-end %}
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## OpenSPIM with laser on
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{% include gallery-begin %}
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{% include gallery-image src="BUD_1352.jpg" caption="Illumination Beam path 1" %}
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{% include gallery-image src="BUD_1354.jpg" caption="Illumination Beam path 2" %}
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{% include gallery-image src="BUD_1365.jpg" caption="Illumination Beam path 3" %}
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{% include gallery-image src="BUD_1369.jpg" caption="Illumination Beam path 4" %}
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{% include gallery-image src="BUD_1457.jpg" caption="Illumination Beam path 5" %}
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{% include gallery-image src="BUD_1522.jpg" caption="Illumination Beam path 6" %}
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{% include gallery-image src="BUD_1394.jpg" caption="Light Sheet in the chamber 1" %}
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{% include gallery-image src="BUD_1402.jpg" caption="Light Sheet in the chamber 2" %}
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{% include gallery-image src="BUD_1407.jpg" caption="Light Sheet in the chamber 3" %}
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{% include gallery-image src="BUD_1410.jpg" caption="Light Sheet in the chamber 4" %}
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{% include gallery-image src="BUD_1416.jpg" caption="Light Sheet in the chamber 5" %}
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{% include gallery-image src="BUD_1425.jpg" caption="Light Sheet in the chamber 6" %}
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{% include gallery-image src="BUD_1508.jpg" caption="Light Sheet in the chamber 7" %}
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{% include gallery-image src="BUD_1521.jpg" caption="Light Sheet in the chamber 8" %}
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{% include gallery-image src="BUD_1352.jpg" width="70%" caption="Illumination Beam path 1" %}
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{% include gallery-image src="BUD_1354.jpg" width="70%" caption="Illumination Beam path 2" %}
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{% include gallery-image src="BUD_1365.jpg" width="70%" caption="Illumination Beam path 3" %}
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{% include gallery-image src="BUD_1369.jpg" width="70%" caption="Illumination Beam path 4" %}
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{% include gallery-image src="BUD_1457.jpg" width="70%" caption="Illumination Beam path 5" %}
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{% include gallery-image src="BUD_1522.jpg" width="70%" caption="Illumination Beam path 6" %}
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{% include gallery-image src="BUD_1394.jpg" width="70%" caption="Light Sheet in the chamber 1" %}
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{% include gallery-image src="BUD_1402.jpg" width="70%" caption="Light Sheet in the chamber 2" %}
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{% include gallery-image src="BUD_1407.jpg" width="70%" caption="Light Sheet in the chamber 3" %}
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{% include gallery-image src="BUD_1410.jpg" width="70%" caption="Light Sheet in the chamber 4" %}
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{% include gallery-image src="BUD_1416.jpg" width="70%" caption="Light Sheet in the chamber 5" %}
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{% include gallery-image src="BUD_1425.jpg" width="70%" caption="Light Sheet in the chamber 6" %}
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{% include gallery-image src="BUD_1508.jpg" width="70%" caption="Light Sheet in the chamber 7" %}
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{% include gallery-image src="BUD_1521.jpg" width="70%" caption="Light Sheet in the chamber 8" %}
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{% include gallery-end %}
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## OpenSPIM with People
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{% include gallery-begin %}
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{% include gallery-image src="Pete_Pavel_spim_1.jpg" caption="OpenSPIM People MPI-CBG 1" %}
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{% include gallery-image src="Pete_PAvel_spim_2.jpg" caption="OpenSPIM People MPI-CBG 2" %}
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{% include gallery-image src="Pete_and_spim_3.jpg" caption="OpenSPIM People MPI-CBG 3" %}
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{% include gallery-image src="Pete_spim_4.jpg" caption="OpenSPIM People MPI-CBG 4" %}
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{% include gallery-image src="OpenSPIM_students.jpg" caption="OpenSPIM People MPI-CBG 5" %}
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{% include gallery-image src="OpenSPIM_Pete_and_students.jpg" caption="OpenSPIM People MPI-CBG 6" %}
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{% include gallery-image src="OpenSPIM_Borg.jpg" caption="OpenSPIM People MPI-CBG 7" %}
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{% include gallery-image src="OpenSPIM_Sonal.jpg" caption="OpenSPIM People MPI-CBG 8" %}
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{% include gallery-image src="OpenSPIM_Steve.jpg" caption="OpenSPIM People MPI-CBG 9" %}
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{% include gallery-image src="OpenSPIM_Sukhdeep.jpg" caption="OpenSPIM People MPI-CBG 10" %}
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{% include gallery-image src="OpenSPIM_students2.jpg" caption="OpenSPIM People MPI-CBG 11" %}
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{% include gallery-image src="Pete_Pavel_spim_1.jpg" width="70%" caption="OpenSPIM People MPI-CBG 1" %}
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{% include gallery-image src="Pete_PAvel_spim_2.jpg" width="70%" caption="OpenSPIM People MPI-CBG 2" %}
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{% include gallery-image src="Pete_and_spim_3.jpg" width="70%" caption="OpenSPIM People MPI-CBG 3" %}
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{% include gallery-image src="Pete_spim_4.jpg" width="70%" caption="OpenSPIM People MPI-CBG 4" %}
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{% include gallery-image src="OpenSPIM_students.jpg" width="70%" caption="OpenSPIM People MPI-CBG 5" %}
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{% include gallery-image src="OpenSPIM_Pete_and_students.jpg" width="70%" caption="OpenSPIM People MPI-CBG 6" %}
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{% include gallery-image src="OpenSPIM_Borg.jpg" width="70%" caption="OpenSPIM People MPI-CBG 7" %}
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{% include gallery-image src="OpenSPIM_Sonal.jpg" width="70%" caption="OpenSPIM People MPI-CBG 8" %}
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{% include gallery-image src="OpenSPIM_Steve.jpg" width="70%" caption="OpenSPIM People MPI-CBG 9" %}
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{% include gallery-image src="OpenSPIM_Sukhdeep.jpg" width="70%" caption="OpenSPIM People MPI-CBG 10" %}
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{% include gallery-image src="OpenSPIM_students2.jpg" width="70%" caption="OpenSPIM People MPI-CBG 11" %}
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{% include gallery-end %}
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## OpenSPIM Build up videos
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{% include gallery-begin %}
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{% include gallery-image src="Solidworks_build_up_3fps_cont.gif" caption="OpenSPIM Solidworks 1" %}
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{% include gallery-image src="Solidworks_build_up_3fps_cont_high_res.gif" caption="OpenSPIM Solidworks 1" %}
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{% include gallery-image src="Build_up_real_pic.gif" caption="OpenSPIM Photo 1" %}
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{% include gallery-image src="Step_by_step_high_res_photo_3fps.gif" caption="Open SPIM Photo 2" %}
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{% include gallery-image src="Solidworks_photo_combined_build_up_3fps.gif" caption="OpenSPIM Solidworks and photo" %}
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{% include gallery-image src="SolidWorks_buildup_640_425.gif" caption="OpenSPIM Solidworks not looping" %}
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{% include gallery-image src="Registered_Real_buildup_cropped.gif" caption="Real buildup stabilized using Preibisch's descriptor-based registration plugin" %}
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{% include gallery-image src="Combined_solidworks_real_registered_large.gif" caption="Real and solidworks buildup" %}
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{% include gallery-image src="Solidworks_build_up_3fps_cont.gif" width="70%" caption="OpenSPIM Solidworks 1" %}
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{% include gallery-image src="Solidworks_build_up_3fps_cont_high_res.gif" width="70%" caption="OpenSPIM Solidworks 1" %}
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{% include gallery-image src="Build_up_real_pic.gif" width="70%" caption="OpenSPIM Photo 1" %}
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{% include gallery-image src="Step_by_step_high_res_photo_3fps.gif" width="70%" caption="Open SPIM Photo 2" %}
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{% include gallery-image src="Solidworks_photo_combined_build_up_3fps.gif" width="70%" caption="OpenSPIM Solidworks and photo" %}
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{% include gallery-image src="SolidWorks_buildup_640_425.gif" width="70%" caption="OpenSPIM Solidworks not looping" %}
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{% include gallery-image src="Registered_Real_buildup_cropped.gif" width="70%" caption="Real buildup stabilized using Preibisch's descriptor-based registration plugin" %}
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{% include gallery-image src="Combined_solidworks_real_registered_large.gif" width="70%" caption="Real and Solidworks buildup" %}
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{% include gallery-end %}
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[Category:Gallery](Category:Gallery "wikilink")

‎_includes/gallery-image

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<li class="gallerybox" style="width: 435px">
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<ul class="gallerybox" style="width: 435px">
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<div style="width: 435px">
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<div class="thumb" style="width: 430px;">
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<div style="margin:67.5px auto;">
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<a href="/images/{{ include.src }}" class="image">
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<div style="margin:33.0px auto;">
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<a href="images/{{ include.src }}" class="image">
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<img alt="" src="/images/{{ include.src }}" width="{{ include.width }}" height="{{ include.height }}" />
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</a>
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</div>
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<p>{{ include.caption }}</p>
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</div>
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</div>
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</li>
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</ul>

‎images/BUD_1365.jpg

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‎images/BUD_1416.jpg

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‎images/BUD_1521.jpg

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‎images/Build_up_real_pic.gif

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