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diff --git a/tasks/felixl.gmi b/tasks/felixl.gmi index b5e34c8..22e0d96 100644 --- a/tasks/felixl.gmi +++ b/tasks/felixl.gmi @@ -157,6 +157,36 @@ * [ ] - Pushing kilifish to genenetwork2/learn the source code build up * [ ] - resmoothen celegans genotypes with the new knowledge +* ## this week (28-07-onwards) +* [-] - predict genotype probabilities with rqlt2 functions + - problems with control setup to load in the needed files for the functions +* [+] - comparison models for @individual rat vs 8 founders (similarities and percentage composition) + [+] - ongoing discussion with alex, there's progress + +* ## this week (04-08-onwards) +* [+] - Testing the logic to infer Hs outbred genotypes with the founders + - Managed to identify parents of origin for each snp on each rat per position, corresponding to the 8 founders + - Still, need to filter in the disntictive snps, then generate haplo blocks., + +* ## this week (11 - 08 - onwards) +* [X] - generate final haplo file and document +* [+] - testing on local gemma and in gn2 + +* ## this week (18-08-onwards) +* [+] - push for the file to be in gn2, and feedback from the team +* [X] - complete the local gemma run, interpret the results +* [+] - process the rest of the Xsomes for a ready file to go to gn2 +* - issues: over filtering snps, neglecting the one parent of origin, takes long to run. +* [+] - prepare an abstract for CTC conference in Barcelona + +* ## this week (01-09-onWards) +* [ ] - finetune abstract +* - include more of what i achieved: main focus; genotype smoothing on models with complex traits +* - thought map: generate plots, compare before and after smoothing, check for overlaps, and whether or not the peaks in traits are same before and after smoothing +* [ ] - troubleshoot inferring scripts for all Xsomes +* - request bonz/alex's help on this (to save time) + + ### Later weeks (non-programming tasks) |