atropos | An NGS read trimming tool | Genomics library

by jdidion Python Version: 1.1.28 License: Non-SPDX

X-Ray Key Features Code Snippets Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | atropos Summary

atropos is a Python library typically used in Artificial Intelligence, Genomics applications. atropos has no bugs, it has no vulnerabilities, it has build file available and it has low support. However atropos has a Non-SPDX License. You can download it from GitHub.

Atropos is tool for specific, sensitive, and speedy trimming of NGS reads. It is a fork of the venerable Cutadapt read trimmer (DOI:10.14806/ej.17.1.200), with the primary improvements being:.

Support

Quality

Security

License

Reuse

Support

atropos has a low active ecosystem.

It has 105 star(s) with 13 fork(s). There are 7 watchers for this library.

It had no major release in the last 12 months.

There are 20 open issues and 87 have been closed. On average issues are closed in 134 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of atropos is 1.1.28

Quality

atropos has 0 bugs and 0 code smells.

Security

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

atropos code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

atropos 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

atropos releases are available to install and integrate.

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

Installation instructions, examples and code snippets are available.

atropos saves you 6477 person hours of effort in developing the same functionality from scratch.

It has 13466 lines of code, 1105 functions and 67 files.

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

Top functions reviewed by kandi - BETA

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

Add command line options
Add a new argument group
Create a composite type
Return the amino acid sequence
Set the contamination sequence
Compute the distance between two sequences
Validate command options
Parse command line arguments
Configure number of threads
Open a file
Start the worker
Run the writer process
Summarize the database
Summarize a sequence of sequences
Calculate contaminant matches
Estimate the metrics for two sequences
Read an SraSequence reader from a stream
Scans the given setup py and returns a boolean indicating whether it is missing
Match two sequences
Return the amino acid sequence of the reads
Estimate R script
Create the versioneer config file
Return a dict of cmdclass to use
Summarize accuracy
Add common options
Creates a reader object for reading sequences

Get all kandi verified functions for this library.

atropos Key Features

No Key Features are available at this moment for atropos.

atropos Examples and Code Snippets

No Code Snippets are available at this moment for atropos.

Community Discussions

Trending Discussions on atropos

Vue.js auto-convert HTML and Unicode entities

QUESTION

Vue.js auto-convert HTML and Unicode entities

Asked 2017-Oct-16 at 01:33

I'm building a simple book browsing app using the open Google Books API. The problem is that in the API response, there are quotes and unicode entities. Now, when rendering, Vue.js is converting the quotes to HTML entities, and while it's converting unicode back to text, it doesn't apply HTML tags where they should. Let me give you an example:

...

ANSWER

Answered 2017-Oct-16 at 01:33

Maybe you can use v-html

Source https://stackoverflow.com/questions/46756802

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

Vulnerabilities

No vulnerabilities reported

Install atropos

Atropos is available from pypi and can be installed using pip.
Required Python 3.4.5+ Python 2.x is NOT supported Python 3.5.2 has a bug that has been reported to cause random SEGFAULTs Cython 0.25.2+ (pip install Cython)
Maybe python libraries pytest (for running unit tests) progressbar2 or tqdm (progressbar support) pysam (SAM/BAM input) khmer 2.0+ (for detecting low-frequency adapter contamination) jinja2 (for user-defined report formats) ngstream (for SRA streaming), which requires ngs