kandi X-RAY | pangolin Summary
kandi X-RAY | pangolin Summary
Phylogenetic Assignment of Named Global Outbreak LINeages. The pangolin web app is maintained by the Centre for Genomic Pathogen and Surveillance.
Top functions reviewed by kandi - BETA
- Generate the final report
- Append a note to the row
- Expand a lineage alias
- Adds relevant fields to the new row
- Use pangoLEARN
- Finds a reference sequence from a reference file
- Clean a reference sequence from a reference sequence
- Encodes a sequence into a single dataLine
- Find the designation cache and alias file
- Checks if the given query file is valid
- Parse fastqc thresholds
- Set up the analysis mode
- Get all data files in a datadir
- Print the version of a conda package
- Emit a record
- Print out the version of the installed tools
- Install Pangolin - Assigns
- Check all dependencies
- Find the query fasta file
- Runs auto - update
- Create a dictionary with default configuration
- Format a text message
- Check for assignment cache file
- Configure the logger
- Set up the constellations
- Set up a temporary directory
pangolin Key Features
pangolin Examples and Code Snippets
Trending Discussions on pangolin
I am visualizing a bunch of effects on different species in a forestplot using the R package jtools. One model has huuuuge confidence intervals compared to the rest, so I end up losing detail on the effect sized for other models(see image below).
As you can see, the elephant CI is blowing out the graph to a different scale and the effect sizes for other species are hard to discern.
Here is my code:...
ANSWERAnswered 2022-Mar-02 at 21:57
jtools::plot_summs returns a
ggplot object, so it can be easily adjusted
I have an application that collects crypto prices from decentralized exchanges (nothing commercial, the goal is mainly to learn some databases techs with real data). I got it working with MongoDB and PostgresSQL. However, I'm seeing massive differences when it comes to writes, in favour of MongoDB. I'm talking several orders of magnitude. I know MongoDB is a NoSQL db and is advertised to be more efficient for this kind of stuff, but I was wondering if I'm missing something with my postgres implementation. I'll describe below how I implemented the logic and I'll try to provide comparable metrics (as much as I can).
To talk to the databases, I use psycopg3 for the Postgres implementation, and pymongo for the MongoDB one.
Here is the data structure I'm writing to the databases:...
ANSWERAnswered 2022-Feb-20 at 18:18
I've a dict of DataFrames I've retrieved and I want to concatenate them together into one large DataFrame. Each DataFrame was retrieved successively, and each has an index column which is an integer index from
n-1. Each dataframe has at most n dataframes.
ANSWERAnswered 2021-May-07 at 10:54
How about reseting the index
I am trying to compile this version of ORB SLAM2 and after fixing some library import errors, I got this:...
ANSWERAnswered 2021-Apr-22 at 14:53
This is an annoying compatibility error. The ORB SLAM you are trying to use only works with Ubuntu 18.04. But, on the ROS ORB SLAM page, they have a new one called
orb_slam_ros (click here) that does the same thing.
NOTE: The new one doesn't say that it outputs ROS maps but using Octomap, you can convert a PointCloud to a Map. NOTE: This is tested in Ubuntu 20.04 ROS Noetic. As of now, 20.10 doesn't work.
Is there any way to create slider using pangolin? small example of creating slider with min and max value, when user clicks on ok button then call a function....
ANSWERAnswered 2021-Feb-03 at 15:12
With some back Rand D i figured out a way to create a slider sort of thing: posting my answer incase if it can be of any ones help:
I am trying to get 3D points using cv2.triangulatePoints but it always returns almost same Z value. My output looks like this: As it seen, all points are in almost same Z value. There is no depth.
Here is my triangulation:...
ANSWERAnswered 2020-Oct-10 at 15:03
unfortunately I don't have the possibility to double-check directly but my gut feeling is that the issues you are facing are essentially due to the choice of your first projection matrix
I did some research and I found this great paper with both theory and practice. Despite differing a little bit from your approach, there is a thing that is worth saying
If you check carefully, the first projection matrix is exactly the camera matrix with an additional last column equal to zero. In fact, the rotation matrix for the first camera reduces to the identity matrix and the corresponding translation vector is a null vector, so using this general formula:
In my website, I have a menu open when users click to toggle. It works fine when I click a link that moves to a particular section. What I want is when the user clicks a link close menu and view toggle. I able to do that but I can't open the menu again by clicking toggle again. Here is what done. When I click to toggle it is not view my menu....
ANSWERAnswered 2020-Oct-06 at 08:24
You basically want the links clicked to replicate the behaviour of the hamburger menu click, why not just have it perform the same action?
On my site, I had an
index.php with a navbar. Then, I needed to add another page, called
second.php, and updated my navbar code accordingly (I have a
nav.html file for the navbar, so that I can use JS to load it onto each page of the site). I also added the navbar code to the
second.php. However, when I opened
index.php, the link to
second.php didn't appear.
I tried restarting my computer, restarting my MAMP server, reopening my code editor, reopening the browser, but nothing worked. Then, I tried renaming my files (for both the purpose of testing and because I needed better file names) and updated all instances of the name of the files accordingly. But then this appeared:
followed by a list of the files in my directory. In particular, the site wasn't displaying. Could someone please explain what's happening and how I can fix it?
ANSWERAnswered 2020-Jun-10 at 15:37
I'm not clear on what isn't working at this point, so I might as well share a working example I have locally. I'm accessing my site at
http://localhost/so/, and going to that URL will load any
index page I have. I have 3 files inside the
nav.html (I removed your
tags because those already exist in the other files):
This is a stochastic problem. When I re-make my project, this problem is more likely to happen. I used gdb core dump analysis and found out that
cv::namedWindow function may be the reason?
This is main.cpp...
ANSWERAnswered 2020-May-19 at 08:42
You should not open a
cv::namedWindow from a thread that isn't the main thread. It might work, but I wouldn't recommend it.
I am new to pangolin and trying to compile a 'hello world' code of pangolin on Qt Creator. I have run into this "undefined reference" issue while compiling it. My code is simple :...
ANSWERAnswered 2020-Mar-10 at 16:53
/home/mavbot/Pangolin/build/src is not a default place to look for libraries, you have to inform the dynamic linker (ld.so) to look there.
You can do this by:
- either setting the environment variable
LD_LIBRARY_PATH=/home/mavbot/Pangolin/build/srcevery time you run your program, or
- compiling your program with a "runpath". This will instruct
ld.soto look there first. The flag is as follows:
No vulnerabilities reported
You can use pangolin like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.
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