ffq | find sequencing data and metadata from public databases | Genomics library

by pachterlab Python Version: 0.3.1 License: MIT

X-Ray Key Features Code Snippets(3)Community Discussions(2)Vulnerabilities Install Support

kandi X-RAY | ffq Summary

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

Fetch run information from the European Nucleotide Archive (ENA).

Support

Quality

Security

License

Reuse

Support

ffq has a low active ecosystem.

It has 460 star(s) with 35 fork(s). There are 14 watchers for this library.

There were 1 major release(s) in the last 6 months.

There are 0 open issues and 38 have been closed. On average issues are closed in 29 days. There are 1 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of ffq is 0.3.1

Quality

ffq has 0 bugs and 0 code smells.

Security

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

ffq code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

ffq is licensed under the MIT License. This license is Permissive.

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

Reuse

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

Deployable package is available in PyPI.

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

Installation instructions are not available. Examples and code snippets are available.

It has 2366 lines of code, 114 functions and 10 files.

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

Top functions reviewed by kandi - BETA

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

Return a list of ScienceReference objects for a given DOI
Parse a FQQ sample
Fetch supplementary supplementary files
Fetch supplementary files from GEO
Parse ffq
Parse encodings
Parse encode_biosample data
Parse donor donor data
Retrieve a bioproject
Parse a BioProject
Returns a list of run_access_accession_access_accession
Fetch a biosample
Extract the list of experiments from an SSR file
Given a GeoID ID return a list of SRA ids
Convert GSM to a targetobject
Get the GSE summary for the given accession
Extract an SRS ID from an SAX file

Get all kandi verified functions for this library.

ffq Key Features

No Key Features are available at this moment for ffq.

ffq Examples and Code Snippets

ffq,Installation

Python

Lines of Code : 1

License : Permissive (MIT)

Copy

pip install ffq

ffq,Usage,Fetch information of an SRA run and display it in the terminal

Python

Lines of Code : 1

License : Permissive (MIT)

Copy

ffq [SRR]

ffq,Usage,Fetch information of multiple SRA runs and display it in the terminal

Python

Lines of Code : 1

License : Permissive (MIT)

Copy

ffq [SRR1] [SRR2] ...

Community Discussions

Trending Discussions on ffq

How to read lines in R starting with certain string

Create a function for tbl_summary in R

QUESTION

How to read lines in R starting with certain string

Asked 2021-Jun-30 at 15:59

Suppose I have a text file such as below. My question is how to read the lines starting with SN in R. The whole file has over 10k rows but I just wanted the lines starting with SN.

...

ANSWER

Answered 2021-Jun-30 at 15:38

Using readLines() and then grep the SN's. Reads in the whole thing first, though.

Source https://stackoverflow.com/questions/68197596

QUESTION

Create a function for tbl_summary in R

Asked 2020-Nov-03 at 14:36

I have an example dataset as below and the codes to generate the table I want. However, I have a lot more variables that I want to add to the table. Repeating the same codes for each variable to create the table would make the codes super long. I am trying to write the tbl_summary to a function, but didn't seem to work and I don't know how to fix it.

...

ANSWER

Answered 2020-Nov-03 at 14:36

Here's an example of your tables that has been functionalized. Happy Programming!

Source https://stackoverflow.com/questions/64658354

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

Vulnerabilities

No vulnerabilities reported

Install ffq

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