sctools | Utilities for large scale distributed single cell data

by HumanCellAtlas Python Version: v0.4.0 License: BSD-3-Clause

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

kandi X-RAY | sctools Summary

sctools is a Python library typically used in Big Data applications. sctools has no bugs, it has no vulnerabilities, it has build file available, it has a Permissive License and it has low support. You can download it from GitHub.

Utilities for large scale distributed single cell data processing

Support

Quality

Security

License

Reuse

Support

sctools has a low active ecosystem.

It has 19 star(s) with 4 fork(s). There are 24 watchers for this library.

It had no major release in the last 12 months.

There are 13 open issues and 5 have been closed. On average issues are closed in 70 days. There are 6 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of sctools is v0.4.0

Quality

sctools has 0 bugs and 0 code smells.

Security

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

sctools code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

sctools is licensed under the BSD-3-Clause License. This license is Permissive.

Permissive licenses have the least restrictions, and you can use them in most projects.

Reuse

sctools releases are available to install and integrate.

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

It has 5667 lines of code, 384 functions and 32 files.

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

Top functions reviewed by kandi - BETA

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

Create a CountMatrix from a sorted BAM file
Splits input files into subfiles
Gather alignments grouped by query name
Attach cell barcodes
Validate the arguments passed to argparse
Validate that the barcode_start_position_length_length is provided
Validate a barcode input
Command line arguments for count matrix
Saves the matrix
Creates a pandas dataframe from a Picard output file
Extract gene exons from a GTF file
Extract gene names from GTF file
Calculates the total number of molecules
Verify whether bam is sorted by tags
Extract metrics from the BAM file
Sort a BAM file
Merge count matrices
Parse Rsem output
Extract extra fields from the record
Return a set of the gene names in the GTF file
Extract gene names from a GTF file
Parse hatsat2 output file
Check for disjoints
Tags a BAM file with tags
Tag a BAM file with tags
Write metrics grouped by table

Get all kandi verified functions for this library.

sctools Key Features

No Key Features are available at this moment for sctools.

sctools Examples and Code Snippets

No Code Snippets are available at this moment for sctools.

Community Discussions

Trending Discussions on sctools

What is "Received close_notify during handshake" Error

QUESTION

What is "Received close_notify during handshake" Error

Asked 2018-Feb-12 at 17:25

I'm writing a code to connect to a http server using Java HttpsURLConnection. The server is sitting behind a proxy. Please find below the code I'm using:

...

ANSWER

Answered 2018-Feb-12 at 17:25

I was able to fix the issue by upgrading Java to Java SE 8. The issue was caused because the server was expecting the SSL protocol if TLSv1.1 which isn't available in Java 1.6 which was being used by the client. After updating to Java 8 and specifying the protocol using https.protocol system variable the error was resolved.

Source https://stackoverflow.com/questions/48626500

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

Vulnerabilities

No vulnerabilities reported

Install sctools

You can download it from GitHub.
You can use sctools 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: