Skip to content

Latest commit

 

History

History
179 lines (152 loc) · 4.91 KB

calendar.md

File metadata and controls

179 lines (152 loc) · 4.91 KB
Raw

nov 7

  • Fit (One) GMM to simulated, 2D data
  • Clean up latex code on overleaf
  • Merge PPN2V with PN2V
  • Book ticket to SS
  • Meeting With MP

nov 8

  • Book ticket to L
  • Reply to KG and DS
  • Meet FJ
  • Meeting with MB

nov 9

  • Meeting with AG
  • Check KK Data

nov 10

nov 11

nov 12

  • Reply to MHT
  • Send out vacation email
  • Generalize above to n Gaussians
  • Reply to KG

nov 13

  • Generalize GenSeg to n SimulatedObjects

nov 14

nov 15

nov 16

  • Generalize GenSeg to n Actual Objects

nov 17

  • Get Threshold from Pixel Intensities
  • Use fixed threshold and see GMM performance
  • Look for QIP example and solver
  • Test on MHT's Graph Strcuture

nov 18

  • Label membrane data
  • label fixed specimen
  • Solve the 512 * 512 issue on AK's data
  • Test segmentation with StarDist
  • Perform Multiview Fusion on JG' data
  • Produce quadratic matching on two time points separated by few time points
  • Perform experiments with HydraNet on Dataset1
  • Perform experiments with HydraNet on Dataset2
  • Implement NMS on MultipleGaussian
  • Check KK Data from the perspective of graph matching
  • Move data to the correct location
  • Find the right parameter for bleach correction
  • Try making the pipeline for 2D data
  • Test Gurobi (Quadratic Matching) on Mastodon, Platynereis
  • Extend MultiViewFusion
  • Perform Segmentation on MHT Data
  • Check performance of segmentation with MHT annotation
  • Write ILP tracker with Mass Conservation on MHT Data
  • Perform Tracking on MHT data
  • Check performance of Tracking on MHT Data
  • Document performance
  • Push the article to arxiv
  • Create validation results with StarDist 2D on data1, data2
  • Test GenSeg on Actual Data
  • Perform FairSim on VY Data
  • Perform Segmentation of Myson and Actin with Pytorch
  • Extend Pytorch for blob detection
  • Document and communicate performance to VY, AB
  • Perform StarDist on JF Data
  • Document and Communicate to JF
  • Prepare denoising pipeline with PPN2V, Bootstrapped for BV
  • Add Care notebooks
  • git rebase the PPN2V repository

nov 18

nov 19

  • book L, UK hotel
  • read Jetley et al paper
  • put the Genseg code into a class
  • How can StarDist be used for a three-class detection?

nov 26

  • Create fileserver for KM's data
  • Create zip file of K's Data
  • Copy zip file to correct location
  • Apply for project space increase
  • Unzip the contents
  • Reply to KM
  • Get documents for A33
  • Fill up the form of A33
  • File the house cancellation
  • Meet IO
  • Copy the data from RL's doc to excel

nov 28

  • Make a new branch for simulated data
  • Scan the ID document
  • Prepare envelope
  • Implement the 'Learning Graph Matching' for C. Elegans dataset
  • Explain the theory of Learning Graph Matching in post
  • Start looking at KM/MB data

nov 29

  • Prepare simulated data three quality levels
  • Prepare presentation to discuss with PAvel
  • ~~Figure out why you are unable to copy data into fileserver (uid=lalit) ~~

dec 2

  • Write a macro
  • Perform convolutions using pytorch
  • Prepare and save simulated data
  • Run the first analysis
  • Push to Github
  • Create a new branch for simulated data: GenSeg
  • Maybe write a post about it
  • Read up on differentiable IOU between masks and distribution
  • Make up a new branch for differentiable IOU
  • Read up on N2V SimSim (what could be the next step)
  • Start summarizing the data from JF
  • Start summarizing the data from KM, MB. Perform analyses
  • Start summarizing the paper1, paper2, paper3
  • Book hotel for QBI
  • Start looking at the biological data
  • Test your learned model on this data.
  • Clean up the code

dec 18

  • See AK's Slides
  • See MP's Slides
  • Document Style Transfer GAN
  • Check out FJ's threshold idea (sum up intensities for each label, look at 10 thresholds and choose)
  • Use network to predict GMM parameters
  • Prepare Slides
  • Document things which AK mentioned yesterday
  • Write letter to Lund University folks.
  • Finish Analysis on Keller Lab
  • Pay for kuche
  • Figure out if starpose makes sense. (Typically you have images and not masks)
  • Read DeepPose.
  • Read Gatys et al.
  • Document Gatys et al.
  • Try Gatys et al on Simulated Data.
  • Document Keller lab Analysis on Simulated Data.
  • Try coloring pixels with different colors
  • Perform unsupervised matching of sub-lineages.
  • Complete GenSeg.
  • See if you can perform N2V on optical flow.

dec 19

  • meet KK.
  • Figure out the cluster.
  • Modify the markdown timetable such that it can print specific months.
  • Answer the pull request.

dec 27

  • Document KellerLab.
  • Document TextureSynthesis.
  • Train a Unet baseline on DSB and save.

dec 28

  • Finish transforming pytorch pn2v for segmentation.
  • Train pn2v baseline on DSB and save.
  • Add second post for documentation on texture synthesis.
  • Add Mouse Actin Notebooks.
  • Add Mouse Skull Nuclei Notebooks.
  • Add ReadMe.
  • Document DCGAN.