Last updated: 2020-01-10

Checks: 2 0

Knit directory: drift-workflow/analysis/

This reproducible R Markdown analysis was created with workflowr (version 1.2.0). The Report tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.


Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.

Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility. The version displayed above was the version of the Git repository at the time these results were generated.

Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:


Ignored files:
    Ignored:    .DS_Store
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    docs/.DS_Store

Unstaged changes:
    Modified:   drift-workflow.Rproj

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.


These are the previous versions of the R Markdown and HTML files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view them.

File Version Author Date Message
Rmd 6d7cf9e Jason Willwerscheid 2020-01-10 workflowr::wflow_publish(“analysis/index.Rmd”)
html 0bb6732 jhmarcus 2019-12-21 Build site.
Rmd 7b7b6d4 jhmarcus 2019-12-19 added init drift alpha application to simulation
html 7b7b6d4 jhmarcus 2019-12-19 added init drift alpha application to simulation
Rmd e3936bc jhmarcus 2019-12-01 pushing 2 pop analysis
html e3936bc jhmarcus 2019-12-01 pushing 2 pop analysis
Rmd 221956b jhmarcus 2019-05-23 added exploration of using bernoulli prior for enbm
html 221956b jhmarcus 2019-05-23 added exploration of using bernoulli prior for enbm
Rmd c03180c jhmarcus 2019-05-22 added 2 pop tree
html c03180c jhmarcus 2019-05-22 added 2 pop tree
Rmd 2ded9d3 jhmarcus 2019-05-20 added bimodal prior sim
html 2ded9d3 jhmarcus 2019-05-20 added bimodal prior sim
Rmd 44a10f7 jhmarcus 2019-05-05 added bimodal ash exploration
html 44a10f7 jhmarcus 2019-05-05 added bimodal ash exploration
html 89ee553 jhmarcus 2019-05-03 added github link
Rmd 912c5ff jhmarcus 2019-05-03 added simpler tree sim
html 912c5ff jhmarcus 2019-05-03 added simpler tree sim
Rmd e32adcc jhmarcus 2019-04-19 init badmixture sim
html e32adcc jhmarcus 2019-04-19 init badmixture sim
Rmd 0a3374d jhmarcus 2019-04-15 added simple sim
html 0a3374d jhmarcus 2019-04-15 added simple sim
html 71e0580 Peter Carbonetto 2019-03-14 Re-built home page with correct top-right link.
html 820a40e Peter Carbonetto 2019-03-14 Added link to hoa_global_alt analysis in home page.
Rmd 4c8921b Peter Carbonetto 2019-03-14 wflow_publish(“index.Rmd”)
html 9d521a9 jhmarcus 2019-03-05 Build site.
Rmd d2573ea jhmarcus 2019-03-05 updated idx
html d2573ea jhmarcus 2019-03-05 updated idx
html 9a69c08 jhmarcus 2019-03-04 updated data hoa
Rmd a1580ed jhmarcus 2019-03-04 added data exploration
html a1580ed jhmarcus 2019-03-04 added data exploration
html c203e00 jhmarcus 2019-03-03 Build site.
html 90a0a02 jhmarcus 2019-02-28 updated to autosomes and added manhatten plot
html 38a461d jhmarcus 2019-02-24 built all
html 7644d40 jhmarcus 2019-02-24 updated index
Rmd 38b57c5 jhmarcus 2019-02-24 simplified greedy flash global analysis
html 403bc6b jhmarcus 2019-02-15 added hide code blocks
html b4749ac jhmarcus 2019-02-15 fixed some typos
html 7a2b6c7 jhmarcus 2019-02-15 added backfit
Rmd f5ef1af jhmarcus 2019-02-15 added workflows for human origins datasets
html f5ef1af jhmarcus 2019-02-15 added workflows for human origins datasets
html 31a16c6 jhmarcus 2019-02-14 added hists of factors
html 9538510 jhmarcus 2019-02-13 switched to struct style plot
html 63c2b75 jhmarcus 2019-02-13 added softimpute
html 7b6ecbc jhmarcus 2019-02-12 made fig size bigger
Rmd 5c0f91a jhmarcus 2019-02-12 init flash proof of principle
html 5c0f91a jhmarcus 2019-02-12 init flash proof of principle
Rmd 46105ee jhmarcus 2019-02-11 Start workflowr project.

Authors: Joe Marcus and Jason Willwerscheid
Advisors: John Novembre, Peter Carbonetto, and Matthew Stephens

Current

Since 2019-12-01:

Deprecated

Before 2019-12-01:

Data

These vignettes describe data preparation steps:

Results

These vignettes describe results on simulated / empirical data: