OLGA | Compute generation probabilities of CDR3 amino acid | Machine Learning library

by statbiophys Python Version: Current License: GPL-3.0

X-Ray Key Features Code Snippets Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | OLGA Summary

OLGA is a Python library typically used in Artificial Intelligence, Machine Learning, Deep Learning, Tensorflow, Numpy applications. OLGA has no bugs, it has no vulnerabilities, it has build file available, it has a Strong Copyleft License and it has low support. You can download it from GitHub.

OLGA (Optimized Likelihood estimate of immunoGlobulin Amino-acid sequences) is a python 2.7/3.6 software developed to compute the generation probability of amino acid and in-frame nucleotide CDR3 sequences from a generative model of V(D)J recombination.

Support

Quality

Security

License

Reuse

Support

OLGA has a low active ecosystem.

It has 19 star(s) with 11 fork(s). There are 2 watchers for this library.

It had no major release in the last 6 months.

There are 8 open issues and 4 have been closed. On average issues are closed in 234 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of OLGA is current.

Quality

OLGA has 0 bugs and 0 code smells.

Security

OLGA has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

OLGA code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

OLGA is licensed under the GPL-3.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

OLGA releases are not available. You will need to build from source code and install.

Build file is available. You can build the component from source.

Installation instructions, examples and code snippets are available.

OLGA saves you 1023 person hours of effort in developing the same functionality from scratch.

It has 2324 lines of code, 77 functions and 9 files.

It has high code complexity. Code complexity directly impacts maintainability of the code.

Top functions reviewed by kandi - BETA

kandi has reviewed OLGA and discovered the below as its top functions. This is intended to give you an instant insight into OLGA implemented functionality, and help decide if they suit your requirements.

Loads the marginal likelihood model
Calculate the S
Reads marginal values from a marginal distribution file
Calculate the joint joint genes
Compute the CDR3 template for a given regex sequence
Formats the V usage masks
Convert gene name to string
Compute the CDR3 Pgen sequence
Construct a dictionary of codons
Translate a nucleotide sequence into codons
Convert sequence to amino acid sequence
Generates a random CDR
Generate random recomb events
Generate random insertion sequence
Computes the probability for a CDR3 sequence
Given a nucleotide sequence and a nucleotide sequence return the amino acid sequence
Compute the Poisson distribution for a given CDR sequence
Determine the type of a sequence
Loads the genotype data
Loads the marginal distribution from the marginal distribution
Compute the amino acid sequence for a given amino acid sequence
Compute the CDR3 pgen for a given nucleotide sequence
Computes the Hamming distance for a given CDR sequence
Construct mapping between V and V
Generate a random CDR
Convert a nt sequence to an amino acid sequence

Get all kandi verified functions for this library.

OLGA Key Features

No Key Features are available at this moment for OLGA.

OLGA Examples and Code Snippets

No Code Snippets are available at this moment for OLGA.

Community Discussions

Trending Discussions on OLGA

BeautifulSoup scraping the wrong page

Return the value of XML with for loop not the number, using Xquery

How do you solve Russian nesting dolls question with prolog?

Snowflake: How do I update a column with values taken at random from another table?

How can I use grouping and page breaks to create a 2-sided SSRS badge report? (Microsoft SQL Server 2012 Report Builder)

Filter dictionary values by strings in python

Dealing with duplicated columns using full_join in R

XML SelectNodes with common values, iteratively

Using inline url() property with Django template {%staric 'img/header/header-1.jpg%}

Complicated select from one table

QUESTION

BeautifulSoup scraping the wrong page

Asked 2022-Mar-18 at 14:38

This didnt work for me. I am scraping the website slider.kz. But when i scrape the website it pulls the html of the main page instead of the specified url. My code

...

ANSWER

Answered 2022-Mar-18 at 13:54

If you use the browser inspector (dev tools - network tab) you can see that, every time you hit "Search" it makes a get request to this kind of url: https://slider.kz/vk_auth.php?q=unravel

The response is a JSON with the results.

So, if you want to use requests you should get this url and then extract the information from the response JSON.

Source https://stackoverflow.com/questions/71527858

QUESTION

Return the value of XML with for loop not the number, using Xquery

Asked 2022-Feb-20 at 12:08

Im using http://xpatheval.apphb.com/ this site, which works perfectly, I just have a problem with code and getting the value that I need. I have an XML code here:

...

ANSWER

Answered 2022-Feb-20 at 12:08

Instead of the numbers 1 to 6, you’ll need to bind the text node of the XPath expression to the variable:

Source https://stackoverflow.com/questions/71194054

QUESTION

How do you solve Russian nesting dolls question with prolog?

Asked 2021-Oct-07 at 16:37

Hi I am new to prolog and am trying to solve the question below:

...

ANSWER

Answered 2021-Oct-05 at 14:58

Knowing what you told us in your description, you said that the query:

Source https://stackoverflow.com/questions/69421445

QUESTION

Snowflake: How do I update a column with values taken at random from another table?

Asked 2021-Sep-30 at 07:15

I've been struggling with this for a while now. Imagine I have these two tables:

...

ANSWER

Answered 2021-Sep-22 at 17:48

two example as follows, the first uses a temporary table to house the joined data by a rownum, the second include everything in the one query, note I used UPPER and lower case strings to make sure the records were being updated the way I wanted.

Source https://stackoverflow.com/questions/69288198

QUESTION

How can I use grouping and page breaks to create a 2-sided SSRS badge report? (Microsoft SQL Server 2012 Report Builder)

Asked 2021-Sep-14 at 21:03

I'm designing an SSRS badge report for Avery 5392 badge stock (6 per page) that will also print each wearer's record ID on the back of their badge.

I've set up RowNumber & RowMod columns in my SELECT statement so that I can filter into my design elements only 3 rows of data per column and control which rows go on the left or right-side report elements, respectively. I've also set up PageNumber as a possible grouping option for page breaks.

Please consider this dummy table as a proxy for the data I'm actually using:

...

ANSWER

Answered 2021-Sep-14 at 21:03

I've taken your sample data and reworked the query to give the data I would use if I need to do this. It may not suit your setup exactly but it should be close enough to revise.

I basically output page numbers and row and column numbers from the dataset query that we can then use in a Matrix control.

Here's the modified query..

Source https://stackoverflow.com/questions/68864879

QUESTION

Filter dictionary values by strings in python

Asked 2021-Jun-10 at 10:07

Lets say I have a csv file which looks like this:

...

ANSWER

Answered 2021-Jun-10 at 10:07

Sure there is. Hope this helps, I've tried to be liberal with comments.

Source https://stackoverflow.com/questions/67918902

QUESTION

Dealing with duplicated columns using full_join in R

Asked 2021-Apr-27 at 23:02

Good afternoon!

I'm currently working on a data manipulation task using R and faced with a dilemma.

Two tables are around, and my goal is to join these tables using specific keys.

Table1:

...

ANSWER

Answered 2021-Apr-27 at 23:02

Does this help? Same output as full join in different order. I'm not specifying PDN, but I am specifying the columns I want to sum, which excludes PDN.

Source https://stackoverflow.com/questions/67291350

QUESTION

XML SelectNodes with common values, iteratively

Asked 2021-Mar-06 at 15:14

I have an XML document of registered voters, and there may be multiple people at one address. I want to SelectNodes for each distinct address (Number and Street) iteratively. My goal is then to be able to assemble the names of all the residents of a single address into one line. For example "Robert and Olga bbbbbb", or "Jennifer eeeee and James fffff", or just "Desmond aaaaaa".
I just need help with the XPath query. And if LINQ is the answer, I'd like to hear that also. Can you please help me with this query?

...

ANSWER

Answered 2021-Mar-06 at 15:14

Try following. Most people will use Xml Serization which is not very efficient. I prefer in this case Xml Linq :

Source https://stackoverflow.com/questions/66506814

QUESTION

Using inline url() property with Django template {%staric 'img/header/header-1.jpg%}

Asked 2020-Dec-08 at 21:56

I'm having trouble with displaying images with Django templates {%static%}.

...

ANSWER

Answered 2020-Dec-08 at 21:56

The way you use the {% static %} in inline styling is just fine. One suggestion (purely cosmetic is to use 'images/header/header-1.jpg' rather than " ").

Here are ways to debug.

clear browser history and try again.
if 1) does not work, open google chrome developer tool, and see if you have GET ... 404(Not Found) error. If this is the case, it just means that your file path is wrong. Make sure that when you put

Source https://stackoverflow.com/questions/65191146

QUESTION

Complicated select from one table

Asked 2020-Nov-20 at 18:36

...

ANSWER

Answered 2020-Nov-20 at 09:17

You can make a select of callrecords-agents and left join on callrecords-ratings in this manner:

Source https://stackoverflow.com/questions/64920248

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install OLGA

OLGA is a python 2.7 software which only uses standard python libraries and requires no additional dependencies. It is available on PyPI and can be downloaded and installed through pip: pip install olga. OLGA is also available on GitHub. The command line entry points can be installed by using the setup.py script: $ python setup.py install. If the command line console scripts are not wanted, no installation is necessary and the scripts compute_pgen.py and generate_sequences.py can be run as executables.