Liftoff | An accurate GFF3/GTF lift over pipeline | Data Visualization library

by agshumate Python Version: 1.6.3 License: GPL-3.0

X-Ray Key Features Code Snippets Community Discussions(9)Vulnerabilities Install Support

kandi X-RAY | Liftoff Summary

Liftoff is a Python library typically used in Analytics, Data Visualization applications. Liftoff 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.

An accurate GFF3/GTF lift over pipeline

Support

Quality

Security

License

Reuse

Support

Liftoff has a low active ecosystem.

It has 326 star(s) with 41 fork(s). There are 7 watchers for this library.

It had no major release in the last 12 months.

There are 39 open issues and 93 have been closed. On average issues are closed in 73 days. There are 4 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of Liftoff is 1.6.3

Quality

Liftoff has 0 bugs and 0 code smells.

Security

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

Liftoff code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

Liftoff 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

Liftoff 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.

It has 1947 lines of code, 167 functions and 20 files.

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

Top functions reviewed by kandi - BETA

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

Parse command line options
Run all liftoff steps
Find and polish broken features
Check if all of the features in the given list are valid
Returns a list of feature types to lift them from a feature types file
Lift all features from a set of alns
Lift a single feature
Returns a dictionary mapping feature types to features
Finds the location of the feature in the reference sequence
Merge mapped features
Creates the parents of the given feature list
Make a new parent feature
Return the reference parent of a feature
Find overlaps between two features
Convert id to original name
Find the best mapping from alignments
Perform alignment of reference chromosomes
Align features to target sequence
Takes a reference FASTA file and stores it in a single transcript
Write a new GFF file to a GFF file
Lift the original annotation
Performs mapping of unmapped features
Performs mapping of unplaced sequences
Fix mismaps
Finds the number of valid_orFs
Extract feature sequences to lift liftover

Get all kandi verified functions for this library.

Liftoff Key Features

No Key Features are available at this moment for Liftoff.

Liftoff Examples and Code Snippets

No Code Snippets are available at this moment for Liftoff.

Community Discussions

Trending Discussions on Liftoff

Node-pre-gyp and bcrypt yarn install problem on MacOS M1 Mac

shell script to get hosts and the total number of requests per host from log file

Knex Migration Error .spread() Not a function

How to use a static variable to hold state within a recursive function

Hide animated arrow when user scrolls up

Populate V-Select from Json - Vue JS

Why the code below is printing an extra-zero in the output?

Does C++ have templating literals like javascript?

Knex migration: Transaction query already complete

QUESTION

Node-pre-gyp and bcrypt yarn install problem on MacOS M1 Mac

Asked 2021-Dec-28 at 18:08

I had to install bcrypt, but fell into errors. I tried most of the solutions I found. There are many threads, but I haven't seen many of them for Mac. Here is what I've got from my terminal:

...

ANSWER

Answered 2021-Sep-22 at 02:03

The problem is that there are no versions for Mac M1 processors with ARM architecture. So anybody who wants to use bcrypt for those Macs, you have to install bcryptjs.

Source https://stackoverflow.com/questions/69262920

QUESTION

shell script to get hosts and the total number of requests per host from log file

Asked 2021-Jul-14 at 10:36

How to get the number of requests per unique host from a log file using shell script.

I managed to get the requested output with the below script. Can someone help with the proper solution?

...

ANSWER

Answered 2021-Jul-12 at 09:21

Something like this should work with your given input file.

Using an associative array which is a bash4+ feature, inside a while + read loop, plus Parameter Expansion to extract the host name from the log.

Source https://stackoverflow.com/questions/68333498

QUESTION

Knex Migration Error .spread() Not a function

Asked 2021-Feb-01 at 16:52

When running the command 'knex migrate:latest' in the terminal I am presented with this error...

...

ANSWER

Answered 2021-Jan-20 at 00:36

Have you tried running npm uninstall -g knex?

Source https://stackoverflow.com/questions/65801414

QUESTION

How to use a static variable to hold state within a recursive function

Asked 2021-Jan-30 at 05:42

I've written the following toy function to see how the stack grows downwards on recursive function calls and then unwinds on returns:

...

ANSWER

Answered 2021-Jan-30 at 05:39

One way to do this is to use the max value of the address-of or previous address-of, knowing that the top-level function call will have the highest stack address. For example:

Source https://stackoverflow.com/questions/65964959

QUESTION

Hide animated arrow when user scrolls up

Asked 2021-Jan-23 at 14:16

I am working on a little project where my website loads at the bottom and the user scrolls "up" to view more content. To indicate that you have to scroll up, I've animated some arrows that point upwards.

My problem is I can't seem to hide the arrow once the user has scrolled up to the next section.

I have attempted z-index and some other Javascript solutions provided here but I can't manage to make any of it work. A lot of the other solutions are complex ways to hide menus on scroll down and then to re-appear once you scroll up however, I'm looking for a simple method to just hide the elements.

...

ANSWER

Answered 2021-Jan-23 at 06:34

I think you made a mistake to applying CSS for the arrow. You need that arrow in the section with id="landing". so you just add CSS

Source https://stackoverflow.com/questions/65856015

QUESTION

Populate V-Select from Json - Vue JS

Asked 2021-Jan-18 at 08:17

I need to populate my v-select multiselect element from json object I tried but it didn't work

This is what I get

...

ANSWER

Answered 2021-Jan-18 at 07:45

create a computed property that transform your object in list of objects like {text: 'something', value: 2}, which is required in v-select.

Do it like this:

Source https://stackoverflow.com/questions/65770448

QUESTION

Why the code below is printing an extra-zero in the output?

Asked 2020-Jul-07 at 14:53

I'm making a launch countdown (from 10 to 0), but after the "10" is printed, instead of printing "9", "8"... it ends printing "90", "80", "70"... with an extra zero.

Code below:

...

ANSWER

Answered 2020-Jul-07 at 14:45

This happens because you start printing 10. After that you just overwrite the 1 on the console. You can easily fix this by adding an extra space to the print command:

Source https://stackoverflow.com/questions/62777803

QUESTION

Does C++ have templating literals like javascript?

Asked 2020-Feb-28 at 15:25

I am looking for a templating literals feature like the one that was introduced to ES6 JavaScript. Is there something comparable?

Javascript:

...

ANSWER

Answered 2020-Feb-28 at 15:25

If you have C++20 available, you could use std::format(). Here's a usage example from the linked page:

Source https://stackoverflow.com/questions/60454621

QUESTION

Knex migration: Transaction query already complete

Asked 2020-Jan-09 at 21:16

Using knex I want to add 2 additional columns to an existing table. To pre-existing records I'd like to add a value based on a calculation. Below is my migration file. It fails on the 2nd line: Cannot read property 'resolve' of undefined.

...

ANSWER

Answered 2020-Jan-08 at 02:12

Knex no longer takes the second Promise parameter, as it shifted to using native promises awhile back. Promise is therefore undefined in your migration, so there's definitely no .resolve property.

It's decidedly odd that someone thought returning Promise.resolve().then was a good idea anyway. What you want is to execute the schema modification, then the data modification. That will look something like this:

Source https://stackoverflow.com/questions/59601200

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

Vulnerabilities

No vulnerabilities reported

Install Liftoff

The easiest way to install Liftoff is with the conda package manager. If you don't have conda installed, you need to install Minimap2 (following instructions here) and Liftoff from source or with pip.

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: