1. 18 Nov, 2022 2 commits
  2. 30 Mar, 2022 1 commit
  3. 24 Mar, 2022 1 commit
  4. 04 Mar, 2022 1 commit
  5. 02 Feb, 2022 1 commit
  6. 12 Nov, 2021 2 commits
  7. 23 Feb, 2021 1 commit
  8. 17 Dec, 2020 2 commits
  9. 13 Oct, 2020 1 commit
  10. 09 Oct, 2020 9 commits
  11. 06 Oct, 2020 1 commit
    • Cecilia, Helene's avatar
      MCMC algo written from scratch (Functions_MCMC) · 417b2771
      Cecilia, Helene authored
      Many wrapper to allow generic functions to be applied systematically for a given model/dataset/parameters without passing it as parameter
      Maybe it adds confusion to the code and is not necessary ?
      Negative numbers returned by odesolver are set equal to 0
      If MCMC sampling gives Inf for a parameter, it is automatically not accepted (to avoid likelihood = NA)
      Regular message "DLSODA corrector convergence failed repeatedly" see if it's worrying and should be fixed
      TODO : format results to allow the use of BayesianTools diagnostics plots
      417b2771
  12. 28 Sep, 2020 1 commit
  13. 24 Sep, 2020 1 commit
    • Cecilia, Helene's avatar
      Code to test basic model (agreed on 21/09 meeting, see manuscript_draft... · 7e759647
      Cecilia, Helene authored
      Code to test basic model (agreed on 21/09 meeting, see manuscript_draft "Target cell-limited model" )
      Automatize plots of likelihood profiles to see if they peak at the right place (for known parameter values, simulated data)
      First observation : basic model seems insufficient to reproduce the dynamics present in our data, particularly the decay
      The simulated data is close to what can be observed for sheep that died during the experiment (before any decay)
      TO DO: Plug Quirine's MCMC code and try to make it work
      7e759647
  14. 19 Sep, 2020 2 commits
  15. 21 Jul, 2020 1 commit
  16. 24 Jun, 2020 1 commit
  17. 19 Jun, 2020 1 commit
  18. 17 Jun, 2020 1 commit
  19. 10 Jun, 2020 1 commit
  20. 26 May, 2020 1 commit
    • Cecilia, Helene's avatar
      Segment script modified to automatize the possibility to fix/estimate given... · 85814a72
      Cecilia, Helene authored
      Segment script modified to automatize the possibility to fix/estimate given parameters and perform likelihood ratio tests.
      In the negative log-likelihood function, p_m and p_l are therefore defined as multiplicative coefficient to be applied to p_s, so that keeping p constant for the three segments is equivalent to having p_m and p_l = 1
      85814a72
  21. 15 May, 2020 1 commit
    • Cecilia, Helene's avatar
      Segment script modified to test 3 nested models: · ec6391af
      Cecilia, Helene authored
      - same probability p for all segments ("one p")
      - different probabilities, no correlations ("three p")
      - different probabilities, with correlations ("corr")
      
      The models are compared with likelihood ratio tests (by hand).
      This was done for the different kinds of data.
      The most complex model performs significantly better for all data.
      ec6391af
  22. 04 May, 2020 1 commit
  23. 21 Apr, 2020 1 commit
  24. 20 Apr, 2020 5 commits