Heritability / Association Study for SNP_29C dataset #5

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sarah-ji wants to merge 33 commits into OpenMendel:master from sarah-ji:sarahji

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sarah-ji commented Aug 31, 2017

Here is the updated notebook using the SNP_29c dataset, please review these changes so we can talk about them next week. Thank you!

sarah-ji added 2 commits

August 31, 2017 14:08


          New notebook for VCM 29c dataset

b01e71f


          SNP_29c notebook for Heritability/Association

ae84664

sarah-ji closed this

sarah-ji reopened this

codecov-io commented Aug 31, 2017 •

edited

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Codecov Report

Merging #5 into master will increase coverage by 26.83%.
The diff coverage is n/a.

@@             Coverage Diff             @@
##           master       #5       +/-   ##
===========================================
+ Coverage    66.7%   93.54%   +26.83%     
===========================================
  Files           3        3               
  Lines         847      604      -243     
===========================================
  Hits          565      565               
+ Misses        282       39      -243

Impacted Files	Coverage Δ
src/multivariate_calculus.jl	`98.76% <0%> (+25.37%)`	⬆️
src/two_variance_component.jl	`92.09% <0%> (+26.66%)`	⬆️
src/VarianceComponentModels.jl	`94.91% <0%> (+28.24%)`	⬆️

Continue to review full report at Codecov.

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Δ = absolute <relative> (impact), ø = not affected, ? = missing data
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coveralls commented Aug 31, 2017 •

edited

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Coverage remained the same at 93.554% when pulling ae84664 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 1, 2017 •

edited

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Coverage remained the same at 93.554% when pulling ae84664 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

1 similar comment

coveralls commented Sep 1, 2017 •

edited

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Coverage remained the same at 93.554% when pulling ae84664 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.


          Updated Heritability Notebook

df28e3d

New Heritability with Edits 9/5/17

coveralls commented Sep 6, 2017 •

edited

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Coverage remained the same at 93.554% when pulling df28e3d on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

1 similar comment

coveralls commented Sep 6, 2017

Coverage remained the same at 93.554% when pulling df28e3d on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

sarah-ji added 19 commits

September 11, 2017 16:03


          Add files via upload


          deleted old version of heritability notebook

3fc0d3c

september 11th


          Delete SNP_29C.bed

89373e4


          Delete SNP_29C.bim

21c852c


          Delete SNP_29C.fam

fcac32a


          Delete SNP_29Ctraitdata.csv

502a0d8


          Delete genotypes29c.csv

763438f


          Delete kin_ped29c.csv

aef56cb


          Delete kinship_ped29c.csv

249f0b8


          Delete heritability.ipynb

94d6706


          Delete Candidate_Association_Study.ipynb

11a048f


          Delete SNP_29C.bed

f76f9b9


          Delete Heritability.ipynb

bbee21e


          Delete SNP_29C.bim

4bcbcc1


          Delete SNP_29C.fam

b4eb9a1


          Delete SNP_29Ctraitdata.csv

0071ca1


          Delete genotypes29c.csv


          Delete kinship_ped29c.csv

f1728c4


          updated notebooks for heritability and assoc

09fc764

sept 11 update

sarah-ji added 3 commits

September 14, 2017 00:55


          Delete SNP_29C.fam

6dd469f


          Delete SNP_29C.bim

2ca65ad


          Delete SNP_29C.bed

2e716c7

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

3 similar comments

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

3 similar comments

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

2 similar comments

coveralls commented Sep 14, 2017 •

edited

Loading

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

3 similar comments

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

3 similar comments

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

2 similar comments

coveralls commented Sep 14, 2017

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

coveralls commented Sep 14, 2017 •

edited

Loading

Coverage decreased (-0.01%) to 93.543% when pulling 2e716c7 on sarah-ji:sarahji into c05dc9d on OpenMendel:master.

sarah-ji added 5 commits

March 7, 2018 11:31


          Add files via upload

7ff5b70

Adding the version 1 of the Mendelian Randomization notebook


          Delete MendelianRandomization_VCMnotebook.ipynb

6ce73c1


          MR with VCM

fcd87fa

Mendelian Randomization using Variance Component Models Example


          Delete Candidate_Association_Study.ipynb

7d0f0b2


          Add files via upload

facb4e0

Association Testing using VCM by Hua Zhou and Janet Sinsheimer

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