augur | Pipeline components for real-time phylodynamic analysis
kandi X-RAY | augur Summary
kandi X-RAY | augur Summary
Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. We provide a continually-updated view of publicly available data with powerful analytics and visualizations showing pathogen evolution and epidemic spread. Our goal is to aid epidemiological understanding and improve outbreak response. Resulting data and inferences are available live at the website nextstrain.org.
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Top functions reviewed by kandi - BETA
- Register parser
- Add default command
- Return the first line of text
- Add subparsers to subparsers
- Convert a JSON dict to a Phylo Newick
- Annotate the parents of a tree
- Return a dictionary of attributes
- Upload files to S3
- Create an invalidation for a given path
- Return a meta - data dictionary
- Test the frequency estimator
- Filter metadata by date
- Plot a tree plot
- Sync files from source bucket to destination bucket
- Resolve polytomies
- Train the tree model
- Swaps the colors from a json file
- Convert a modified tree to a json representation
- Takes a test
- Get command line arguments
- Calculate cross validation
- Validate the model
- Download files from S3
- Returns a set of excluded values
- Train the substitution model
- Filters the given filter using the given filter
augur Key Features
augur Examples and Code Snippets
Community Discussions
Trending Discussions on augur
QUESTION
I have a very strange external links behavior on this page:
There is a list of external links visible by clicking on "Go Deeper".
On some links, the address of the current page is added at the beginning of the external link.
E.g.: iSAM™ (1997)
E.g.: TTTP Photo Collection - 1997
All external links are absolute links.
When you look at the source code, the links are correct.
This site runs under Wordpress, the links are contained in a Gutenberg block built with the ACF plugin.
I tested the following things:
- Disable all plugins. The browser or something else continues to add the current page address on some links only.
- I emptied the server cache, removed all the .htaccess rules except the wordpress part.
- I made sure that the PHP file that writes these links is in UTF-8.
- By recreating the links, it is always the same ones who are affected.
Does anyone have any idea what could cause this?
Thank you for your time and help!
ANSWER
Answered 2020-Nov-12 at 10:01You have the so called "hidden characters" before your link start. I suggest you to check it by yourself with some online tool like this: https://www.soscisurvey.de/tools/view-chars.php. If you try to paste there the link copied by your source code you will see you have hidden stuff before "https:..."
The solution to this issue is that you delete all the characters and you write them all over again by yourself, w/o copy/pasting them from another source or in alternative paste them inside some non-HTML text editor before pasting them to your website
QUESTION
I writing convenience wrapper on top of the Coinbase API. One of the requirements is to get all user accounts.
Using proper set of scopes and after a successful OAuth authentication I can use /accountsendpoint.
But the answer is confusing:
...ANSWER
Answered 2019-Jul-25 at 10:29After a day of scratching my head finally found my answer.
Attaching the accounts happens on a single wallet basis.
User needs to add BTC, XRP, ETC etc. accounts/wallets separately. Each receives it's own TokenResponse with access and refresh token, which your application needs to manage.
Still do not understand what is the purpose of returning in /accounts endpoint remaining accounts with non usable id.
QUESTION
I'm trying to merge rows with same IDs in Google Sheets
From:
...ANSWER
Answered 2019-Jun-06 at 01:44=ARRAYFORMULA(QUERY({INDEX(QUERY(A1:B,
"select A,count(A) where A is not null group by A pivot B", 0), , 1),
REGEXREPLACE(TRIM(TRANSPOSE(QUERY(TRANSPOSE(IF(ISNUMBER(QUERY(A1:B,
"select count(A) where A is not null group by A pivot B", 0)), INDEX(QUERY({A1:A,B1:B&";"},
"select count(Col1) where Col1 is not null group by Col1 pivot Col2 offset 1", 0), 1,), ))
, , 999^99))), ";$", )}, "offset 1", 0))
QUESTION
I finished my first app this weekend (thanks to you Stack Overflow users!) and I'm currently in the midst of optimizing the code. I already fixed most of the duplicates and un-safe practices but this one is getting me stuck.
Here is how I save all the informations I need for a given cryptocurrency to Core Data when the user adds it to his wallet:
...ANSWER
Answered 2018-Mar-26 at 16:14I think you should create a type alias for a tuple type that stores these information:
QUESTION
I want to get a string like: Intel Open Source Technology Center Mesa DRI Intel(R) HD Graphics 520 (Skylake GT2)
Only using javascript on the browser. I know that a library from augur.io can find that value but I need a open source solution or to know what js method can be used.
...ANSWER
Answered 2018-Mar-14 at 02:33You can use WebGL's WEBGL_debug_renderer_info extension. Though (a) the user might not have WebGL and (b) the extension might not be available depending on the browser.
QUESTION
I want to convert the contents of *.sav file into a *.csv file in Python. I have written the following lines of code to access the details of variables in *.sav file. Now, I am not clear on how I can write the accessed variable data to a .csv file with headers
...ANSWER
Answered 2017-Mar-23 at 08:48I could solve my problem by changing the requisite output format and here is my code:
QUESTION
Problem
I have a MVVM application that uses Caliburn.Micro as the MVVM framework and MEF for "dependency injection" (in quotes as I am aware it is not strictly an DI container). The composition process of this large application is starting to take increasingly large amounts of time based on the number of compositions MEF is undertaking during the launch of the application and as such I want to use an animated splash screen.
Below I will outline my current code that shows the splash screen on a separate thread and attempts to launch the main application
...ANSWER
Answered 2017-Apr-27 at 22:32You are creating an instance of SplashScreenView on a new background thread, but then calling MetroThemeManager.ChangeAppStyle inside ThemeManager class from the Main UI thread.
Because MetroWindow class is parent of your SplashScreenView you cannot prevent it from internally subscribing to the ThemeManager.IsThemeChanged event which you are triggering by calling MetroThemeManager.ChangeAppStyle inside ThemeManager class.
Since code of the ThemeManager.IsThemeChanged event handler inside MetroWindow cannot be executed on a Main UI thread which is different from the thread splash screen was created on you should either [1] derive your SplashScreenView from a standard Window class to avoid dependency on MetroWindow or [2] avoid calling MetroThemeManager.ChangeAppStyle while your SplashScreenView is still alive.
Commenting out two lines of code is removing the violation, see lines below. But obviously the actual solution needs to be done on another level, see above.
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