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Meeting 9 4 2020

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yoav freund edited this page Sep 4, 2020 · 13 revisions

Our next deadline is 9,10 Nov. Oversight meeting

Near-term Plan

  1. Obtaining data
  • Sexed matched pairs of complementary function. Priority is one sex matched pair.

1.a.

Pairings set #1 is Geneoglosis; Masseter; Phenic
Geneoglosis DK52 (F) - Done by Ed as of 26 Aug - Ch 1-3 HiRes ; need to verify overlays (Beth to make mtg w/Ed on 27 Aug - priority 1)
DK39 (M) - under Ed's resorting - soon to have Ch 2/3 HiRes; (Beth to make mtg w/Ed on 27 Aug)
Masseter DK54 (F) - need to correct for 6 µm sections; Beth and Hannah and David need to reasign sections; need to check Ch 2/3 HIRes - priority 2
DK43 (M) - need to correct for "squished" side + add Ch 2/3 HIRes (Beth to make mtg w/Ed on 27 Aug)

  1. Align section-to-section (local is Elastix on 32X rediced sectios extrapolated to full section - so long as sectios are OK)

    • [We are still working out the pipeline with CSHL/Bangalor.]

  2. In short term - align atlas manually ; DK and BF to do this for DK52 AFTER ED and BF verify sections and labeling

  3. Display overlay data (Ch 2 and 3) using Neuroglancer (27 Uag Mtg to clarify this)

  4. Access, display, and annotate DOTS! (labeled somata for now) - using CVAT

  5. Assign each puncta an (x,y,z), and display in real units as a ball (same formal as with landmarks) in Neurglancer

Progress Table

| Projection | Animal | sec2sec alignment | Display 2 layers in neuroglancer | atlas2sections alignment | |---------------|----------| | Geneoglosis | DK52 (F) | | | DK39 (M) | | Masseter | DK54 (F) | | | DK43 (M) |

Other tasks

  1. Establish offsets for annotations to the three reference (Thionin) brains
  2. Simultaneous share and evaluate data across sites with Neuroglancer
  3. Add the shell of the brain

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