Commits · aedced909297bd37c32b568114098c561f502555 · Yoann DUFRESNE / linked reads molecule ordering

06 Jan, 2020 4 commits
- d2 simplification and add maxclique community detection as argument · aedced90
  Yoann Dufresne authored Jan 06, 2020
  
  aedced90
- Snakefile simplifications · 30776560
  Yoann Dufresne authored Jan 06, 2020
  
  30776560
- add mergind std dev in data generation snakefile · 0e41831c
  Yoann Dufresne authored Jan 06, 2020
  
  0e41831c
- add mergind std dev in data generation snakefile · 953ffebe
  Yoann Dufresne authored Jan 06, 2020
  
  953ffebe
03 Jan, 2020 1 commit
- some of my tests on alternative d_graphs construction techniques · b906f1b9
  rchikhi authored Jan 03, 2020
  
  b906f1b9
30 Dec, 2019 3 commits
- update Snakefile for d2 generation. Update the readme to match the snakefile · 55032d52
  Yoann Dufresne authored Dec 30, 2019
  
  55032d52
- add config values for snakefile data generation and describe them in the readme · 32eb0e52
  Yoann Dufresne authored Dec 30, 2019
  
  32eb0e52
- deconvolution updates · 288449cc
  Yoann Dufresne authored Dec 30, 2019
  
  288449cc
11 Dec, 2019 1 commit
- some debug info to d2 graph construction · be448d6c
  rchikhi authored Dec 11, 2019
  
  be448d6c
27 Nov, 2019 1 commit
- remove execuption variability · 47b4117e
  Yoann Dufresne authored Nov 27, 2019
  
  47b4117e
18 Nov, 2019 1 commit
- Add a Snakemake for data simulation · 9fde8e34
  Yoann Dufresne authored Nov 18, 2019
  
  9fde8e34
14 Nov, 2019 3 commits
- bugfix: correct hierarchy in tar.gz · e059dd4b
  Yoann Dufresne authored Nov 14, 2019
  
  e059dd4b
- bugfix and optimizations on greedy reduction multiple edge · e0f86164
  Yoann Dufresne authored Nov 14, 2019
  
  e0f86164
- d2 generation Snakefile · 5ff927fa
  Yoann Dufresne authored Nov 14, 2019
  
  5ff927fa
08 Nov, 2019 1 commit
- reduction bugfix · 396f4d19
  Yoann Dufresne authored Nov 08, 2019
  
  396f4d19
04 Nov, 2019 1 commit
- bugfix: unpredictable filter counts · 6802438f
  Yoann Dufresne authored Nov 04, 2019
  
  6802438f
11 Sep, 2019 1 commit
- molecule generation variations · d0b9fb62
  Yoann Dufresne authored Sep 11, 2019
  
  d0b9fb62
10 Sep, 2019 1 commit
- allow non regular molecule repartition along the genome in the simulations · fedc3560
  Yoann Dufresne authored Sep 10, 2019
  
  fedc3560
09 Sep, 2019 1 commit
- opti: divide the d2 computation time by several order of magnitude · 9a61b76f
  Yoann Dufresne authored Sep 09, 2019
  
  9a61b76f
06 Sep, 2019 1 commit
- create a molecule proxy in the path creation · a7343c1f
  Yoann Dufresne authored Sep 06, 2019
  
  a7343c1f
05 Sep, 2019 2 commits
- evalution of path ok · c0bf8e4c
  Yoann Dufresne authored Sep 05, 2019
  
  c0bf8e4c
- finitions for d2_to_path · d1bb245c
  Yoann Dufresne authored Sep 05, 2019
  
  d1bb245c
04 Sep, 2019 2 commits
- gitignore + pycharm · e51992a0
  Yoann Dufresne authored Sep 04, 2019
  
  e51992a0
- cleaning workspace · e8599455
  Yoann Dufresne authored Sep 04, 2019
  
  e8599455
28 Aug, 2019 2 commits
- refactor name to idx · ade48191
  Yoann Dufresne authored Aug 28, 2019
  
  ade48191
- rename reduction · 36e8ec7f
  Yoann Dufresne authored Aug 28, 2019
  
  36e8ec7f
22 Aug, 2019 1 commit
- unitigs to graph in progress · 9adec63c
  Yoann Dufresne authored Aug 22, 2019
  
  9adec63c
21 Aug, 2019 3 commits
- Merge branch 'master' of gitlab.pasteur.fr:ydufresne/10x-deconvolve · a652cd40
  Yoann Dufresne authored Aug 21, 2019
  
  a652cd40
- scored unitig extraction ok · 1bc64e01
  Yoann Dufresne authored Aug 21, 2019
  
  1bc64e01
- adapte evaluate.py to new gexf format · 391412f8
  Rayan CHIKHI authored Aug 21, 2019
  
  391412f8
20 Aug, 2019 4 commits
- unitigs generation ok · e7f0a973
  Yoann Dufresne authored Aug 20, 2019
  
  e7f0a973
- add requirements file · 717a43e4
  Yoann Dufresne authored Aug 20, 2019
  
  717a43e4
- update tests · b82c96d6
  Yoann Dufresne authored Aug 20, 2019
  
  b82c96d6
- update deprecated Equals to Equal · 04e7e460
  Yoann Dufresne authored Aug 20, 2019
  
  04e7e460
14 Aug, 2019 1 commit
- refactor to put everything in graph attributes instead of name · ebf850ac
  Yoann Dufresne authored Aug 14, 2019
  
  ebf850ac
13 Aug, 2019 4 commits
- fix bugs induced by the d2g heritage simplification in all the mains · db2ebce9
  Yoann Dufresne authored Aug 13, 2019
  
  db2ebce9
- refactor mains and subgraph definition to be coherent with nx graph heritage · ba61e7d2
  Yoann Dufresne authored Aug 13, 2019
  
  ba61e7d2
- transform d2g to heritate from networkx Graph instead of beeing composed of · 3474f04e
  Yoann Dufresne authored Aug 13, 2019
  
  3474f04e
- compute unitigs · 367747d2
  Yoann Dufresne authored Aug 13, 2019
  
  367747d2
09 Aug, 2019 1 commit
- simple transitive reduction done · c0020617
  Yoann Dufresne authored Aug 09, 2019
  
  c0020617