DARTS | learning Augmented RNA-seq analysis | Genomics library

by Xinglab Python Version: v0.1.0 License: Non-SPDX

X-Ray Key Features Code Snippets Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | DARTS Summary

DARTS is a Python library typically used in Artificial Intelligence, Genomics, Deep Learning, Pytorch, Tensorflow applications. DARTS has low support. However DARTS has 3 bugs, it has 1 vulnerabilities, it build file is not available and it has a Non-SPDX License. You can download it from GitHub.

Deep-learning Augmented RNA-seq analysis of Transcript Splicing

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Quality

Security

License

Reuse

Support

DARTS has a low active ecosystem.

It has 101 star(s) with 30 fork(s). There are 11 watchers for this library.

It had no major release in the last 6 months.

There are 16 open issues and 3 have been closed. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of DARTS is v0.1.0

Quality

DARTS has 3 bugs (0 blocker, 0 critical, 3 major, 0 minor) and 241 code smells.

Security

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

DARTS code analysis shows 1 unresolved vulnerabilities (0 blocker, 0 critical, 1 major, 0 minor).

There are 2 security hotspots that need review.

License

DARTS 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

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

DARTS has no build file. You will be need to create the build yourself to build the component from source.

Installation instructions, examples and code snippets are available.

DARTS saves you 869 person hours of effort in developing the same functionality from scratch.

It has 1989 lines of code, 88 functions and 33 files.

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

Top functions reviewed by kandi - BETA

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

Make a single table from spider output
Normalize RBP exp
Read the coefficients from a RBC file
Read Darts - flat results file
Read a sequence feature file
Read the contents of the file
Process parsed arguments
Do STAR mapping
Read the counts from GTF SEAT txt file
Construct a training data control control flow control control
Write counts file
Read rbp file into a dictionary
Calculates the ROCAUC
Write out prediction results
Predict the model
Substitute home directory

Get all kandi verified functions for this library.

DARTS Key Features

No Key Features are available at this moment for DARTS.

DARTS Examples and Code Snippets

No Code Snippets are available at this moment for DARTS.

Community Discussions

Trending Discussions on DARTS

Can't deserialize JSON into an object with nested list

Input data length must be a multiple of cipher's block size in AES CTR

When TCN is used for prediction（python）, there is a valueerror: high is out of bounds for int32. I can't find out why

How get process PID in Dart (Windows) with EnumProcesses

How to set category mask in sprite kit?

Calculate shortest paths for dart score checkout python

Flutter: Unable to migrate to null safety

Why is the code before DART async modifies the method await synchronized?

how to convert double values to integer with int fint (double) without getting 'Server connection lost' in Uppaal

2D Point identification/matching on a continous loop with new and old points

QUESTION

Can't deserialize JSON into an object with nested list

Asked 2021-May-26 at 14:30

Apologies for asking a fairly common question, I have been looking all over and can't find a solution that fixes my problem.

I am using Firesharp, and trying to deserialize a Json object that Firebase returns into a class with a nested list.

...

ANSWER

Answered 2021-May-26 at 14:30

This in no way a complete answer. I assume you don't want to map/create classes for each "sub class", e.g. Barbarian, Wizard etc. You could perhaps use JsonConverter. The example only handles the first "anonymous" range of objects. Maybe you'll find some of this useful.

Source https://stackoverflow.com/questions/67702360

QUESTION

Input data length must be a multiple of cipher's block size in AES CTR

Asked 2021-Apr-24 at 17:38

I encrypt a string using Dart's encrypt package. The code I encrypted is below.

...

ANSWER

Answered 2021-Apr-24 at 17:38

I cannot reproduce the problem when decrypting with AES/CTR and the encrypt package.

The following code with an encryption and associated decryption runs fine on my machine:

Source https://stackoverflow.com/questions/67244624

QUESTION

When TCN is used for prediction（python）, there is a valueerror: high is out of bounds for int32. I can't find out why

Asked 2021-Apr-21 at 08:16

The database is darts and the code is GitHub- https://unit8co.github.io/darts/examples/06-TCN-examples.html Every example here is used on pychar with the following errors My environment is created by CONDA, and the virtual environment is Python 3.8

Error message

...

ANSWER

Answered 2021-Apr-21 at 08:16

Go to the file ...\site-packages\darts\utils\torch.py in your system
Find the line MAX_TORCH_SEED_VALUE = (1 << 63) - 1 which should be around line 17
Change it to MAX_TORCH_SEED_VALUE = (1 << 31) - 1 so that it fits into 32 bit int.

After saving this change, code should run fine.

(credit: https://github.com/unit8co/darts/issues/235#issue-737158114)

Source https://stackoverflow.com/questions/66514169

QUESTION

How get process PID in Dart (Windows) with EnumProcesses

Asked 2021-Apr-16 at 17:33

I can create function to get path from PID, but now i must get process PID.

...

ANSWER

Answered 2021-Apr-13 at 19:03

You can do this without messing with FFI at all. Just run the Windows cmd program tasklist and parse the output.

(I'm not currently sitting at a Windows computer to test this, but it should be pretty close to accurate.)

Source https://stackoverflow.com/questions/67080070

QUESTION

How to set category mask in sprite kit?

Asked 2021-Apr-07 at 22:52

  let dart = SKSpriteNode(imageNamed: "Dart")
        dart.physicsBody?.isDynamic = true
        dart.physicsBody?.categoryBitMask = 3
        dart.physicsBody?.collisionBitMask = 2

...

ANSWER

Answered 2021-Apr-07 at 22:52

You haven't actually made a physics body.

Source https://stackoverflow.com/questions/66993177

QUESTION

Calculate shortest paths for dart score checkout python

Asked 2021-Mar-22 at 10:34

I want to create a python file that returns all the shortest paths given a certain dart score. Import to note is that the last dart throw should be a double or a double bulls-eye (50).

This is what I got sofar

...

ANSWER

Answered 2021-Mar-22 at 10:34

I had a go at this as an integer program, using python-mip, and it does produce solutions. Unfortunately it only finds a single solution by default - it will need a bit of coercion to generate multiple sols.

Before this I knew literally zero darts rules. I don't know how to read that image you linked. so there are almost certainly some rules I didn't pick up with my few minutes of googling that need to be incorporated.

pip install mip for the optimsation library.

Source https://stackoverflow.com/questions/66719519

QUESTION

Flutter: Unable to migrate to null safety

Asked 2021-Mar-15 at 23:59

I am following this guide to migrate my project to null safety: https://dart.dev/null-safety/migration-guide

But I am facing this issue with the dart migrate command :

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ANSWER

Answered 2021-Mar-15 at 23:59

Open Registry Editor in Windows and search (Ctrl + F) for "DART_SDK". Update the entry if it is incorrect.

Restart your PC for any changes to remain.

Source https://stackoverflow.com/questions/66623402

QUESTION

Why is the code before DART async modifies the method await synchronized?

Asked 2021-Mar-11 at 02:30

This is the code that uses Future

...

ANSWER

Answered 2021-Mar-10 at 14:34

The change was made because the old behavior, of delaying the start of an async function, was getting in the way of people doing what they wanted to do.

Say you want to get the first ten elements of a stream. You'd write that as:

Source https://stackoverflow.com/questions/66561130

QUESTION

how to convert double values to integer with int fint (double) without getting 'Server connection lost' in Uppaal

Asked 2021-Feb-22 at 14:11

I want to convert double values to integer to use them in the guards of the model.For this I found the int fint (double) function at https://www.it.uu.se/research/group/darts/uppaal/download.shtml and now I use uppaal-4.1.24 instead of uppaal-4.1.19. Unfortunately I always get the message 'Server connection lost' when I try to execute the corresponding transition in one of the simulators or in the verifier. Has anyone had a similar problem and knows a solution?

Best greetings, Josi

...

ANSWER

Answered 2021-Feb-22 at 14:11

Unfortunately Uppaal 4.1.24 simulators are not able to handle floating point variables (and models with ODEs). These features currently for only in verifier using SMC queries.

See issue 23 for more details: https://github.com/UPPAALModelChecker/UPPAAL-Meta/issues/23

Source https://stackoverflow.com/questions/66238862

QUESTION

2D Point identification/matching on a continous loop with new and old points

Asked 2021-Jan-17 at 00:52

I'm working on a dart project. I am detecting darts with a laser scanner. Using K-Means I am able to detect the dart clusters. I am scanning from the point a player starts his turn. This means I have the most scan points for the first dart and the least for the last one. I detect a dart hit with a vibration sensor. I am running K-Means on a loop so my calculated dart points get more accurate over time hence to more scan points every run.

Now I would like to assign my cluster centers to the dart number. I tried caring over the cluster centers from the last run to have the same cluster centers order every time but without a smart way of generating a center for the new dart I often run into the problem of K-Means halfing an existing cluster due to being bigger.

I am searching for an algorithm that allows me to assign the center to an id (0, 1, ...). If there is a new cluster it gets a new id. I want to run this algorithm AFTER running K-Means so it only works with the cluster centers. I guess I could simple calculate the distances between the old and the new points and identificate them that way. The one remaining is the new dart point.

I would also be open switching from K-Means to another clustering algo if that helps.

I hope you understand the problem I am facing. Thank you for your input.

...

ANSWER

Answered 2021-Jan-17 at 00:52

If I get your question right, you need to assign one set of cluster centers to another and use the centers' locations only. This problem is called minimum weight matching or linear sum assignment problem. First, you need to calculate the cost matrix, i.e., the distance matrix between cluster centers of the two sets. Then you use this matrix to find the assignment with the minimal overall distance. Scipy library has functions for this kind of problems:

Source https://stackoverflow.com/questions/65756119

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