cnvkit | Copy number variant detection from targeted DNA | Genomics library

by etal Python Version: 0.9.7b1 License: Non-SPDX

X-Ray Key Features Code Snippets Community Discussions(2)Vulnerabilities Install Support

kandi X-RAY | cnvkit Summary

cnvkit is a Python library typically used in Artificial Intelligence, Genomics applications. cnvkit has no vulnerabilities, it has build file available and it has low support. However cnvkit has 3 bugs and it has a Non-SPDX License. You can install using 'pip install cnvkit' or download it from GitHub, PyPI.

Copy number variant detection from targeted DNA sequencing

Support

Quality

Security

License

Reuse

Support

cnvkit has a low active ecosystem.

It has 406 star(s) with 149 fork(s). There are 32 watchers for this library.

There were 1 major release(s) in the last 12 months.

There are 250 open issues and 432 have been closed. On average issues are closed in 109 days. There are 1 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of cnvkit is 0.9.7b1

Quality

cnvkit has 3 bugs (0 blocker, 0 critical, 3 major, 0 minor) and 192 code smells.

Security

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

cnvkit code analysis shows 0 unresolved vulnerabilities.

There are 12 security hotspots that need review.

License

cnvkit has a Non-SPDX License.

Non-SPDX licenses can be open source with a non SPDX compliant license, or non open source licenses, and you need to review them closely before use.

Reuse

cnvkit releases are available to install and integrate.

Deployable package is available in PyPI.

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

cnvkit saves you 4567 person hours of effort in developing the same functionality from scratch.

It has 9655 lines of code, 586 functions and 77 files.

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

Top functions reviewed by kandi - BETA

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

Plot a heatmap .
Create reference sequence .
Compute a pairwise comparison of sex chromosomes .
Perform segmentation .
Select genes within the specified range .
r Calculate the Haar SeqSeg .
Calculate weight weighted weight based on reference counts .
Load a sample block .
Handle CNVkit .
Transfer fields from cnarr to cnarr

Get all kandi verified functions for this library.

cnvkit Key Features

No Key Features are available at this moment for cnvkit.

cnvkit Examples and Code Snippets

No Code Snippets are available at this moment for cnvkit.

Community Discussions

Trending Discussions on cnvkit

Send ajax request to django and update html

R loop between multiple data.frames and assign values to them

QUESTION

Send ajax request to django and update html

Asked 2020-Jun-29 at 11:59

I am writing a web application with Django that through ajax POST request executes on the server some code written in python, and should retrieve on the client side the output as a JSON and update the HTML partially with javascript. I can send the request to the server and execute the subprocess, also do I retrieve the JSON data but not updated in the HTML but shown as a dictionary to the website without the HTML content. So the last part is not working, and I figured out that for the ajax request when I test it in the view function it returns false. Another problem is that the subprocess has a file as output so I can not catch the stdout from the subprocess

view.py:

...

ANSWER

Answered 2020-Jun-29 at 11:59

I could find a solution myself, I followed this tutorial: https://realpython.com/django-and-ajax-form-submissions/ and finally I made my first asynchronous request.

.js

Source https://stackoverflow.com/questions/62621339

QUESTION

R loop between multiple data.frames and assign values to them

Asked 2019-Nov-07 at 17:55

I'm using R to perform some alterations in cnvkit output (for my purposes). The thing is: doing the job sample by sample, the script works like a charm but, when I put it into a for loop, it breaks!

Tried a lot of answers posted on Stack Overflow but none of then helped me.

...

ANSWER

Answered 2019-Aug-08 at 21:45

Welcome to StackOverflow!

You've declared a function:

Source https://stackoverflow.com/questions/57420720

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

Vulnerabilities

No vulnerabilities reported

Install cnvkit

You can install using 'pip install cnvkit' or download it from GitHub, PyPI.
You can use cnvkit 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.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

Find more information at: