raptor | Graph-based mapping of long sequences , noisy or HiFi | Genomics library

by isovic Perl Version: v0.15.0 License: BSD-3-Clause-Clear

X-Ray Key Features Code Snippets(3)Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | raptor Summary

raptor is a Perl library typically used in Artificial Intelligence, Genomics applications. raptor has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. You can download it from GitHub.

Graph-based mapping of long sequences, noisy or HiFi.

Support

Quality

Security

License

Reuse

Support

raptor has a low active ecosystem.

It has 53 star(s) with 2 fork(s). There are 9 watchers for this library.

It had no major release in the last 12 months.

raptor has no issues reported. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of raptor is v0.15.0

Quality

raptor has no bugs reported.

Security

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

License

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

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

Reuse

raptor releases are available to install and integrate.

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

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raptor Key Features

No Key Features are available at this moment for raptor.

raptor Examples and Code Snippets

raptor,<a rel="nofollow"></a>

Perl

Lines of Code : 51

License : Permissive (BSD-3-Clause-Clear)

Copy

raptor -r ref.fa -q reads.fasta > out.paf
raptor -r ref.fa -q reads.fasta -o out.paf

raptor -r ctg.fa -g ctg.gfa -q reads.fasta -o out.paf

raptor -r ctg.fa -G ctg.gfa -q reads.fasta -o out.paf

raptor --align -r ref.fa -q reads.fasta -o out.paf

raptor,<a rel="nofollow"></a>,<a rel="nofollow"></a>

Perl

Lines of Code : 16

License : Permissive (BSD-3-Clause-Clear)

Copy

H	VN:Z:2.0
S	gi|545778205|gb|U00096.3|	100000	*
E	E1	gi|545778205|gb|U00096.3|+	gi|545778205|gb|U00096.3|+	22502	22502	40493	40493	*
E	E2	gi|545778205|gb|U00096.3|+	gi|545778205|gb|U00096.3|+	41151	41151	59889	59889	*
E	E3	gi|545778205|gb|U00096.3|+

raptor,<a rel="nofollow"></a>,<a rel="nofollow"></a>

Perl

Lines of Code : 10

License : Permissive (BSD-3-Clause-Clear)

Copy

$ raptor -r test-data/graph-mapping/real-1-plasmid/asm.plasmids.fa -g test-data/graph-mapping/real-1-plasmid/contig.s2.gfa2 -q test-data/graph-mapping/real-1-plasmid/ref.plasmids.fa -v 0
gi|386611788|ref|NC_017637.1|	102536	17	12592	-	ctg.s2.000000F

Community Discussions

Trending Discussions on raptor

How to get a value in another table in R?

Retrieve data from two columns of csv file based on user input

Protocol Buffer Corrupting Data

Tidy multiple anovas

If cell has 2 words, extract only 1st word and if cell has 3 words, extract 2 first words - PANDAS/REGEX

Stuck with SQL query need guidance

How to prevent rerender when using react functional components

How to dynamically change a text from URL input?

full_join adding extra rows and NA in r

iterating over an array of semi-unique objects

QUESTION

How to get a value in another table in R?

Asked 2021-May-16 at 13:37

My problem is probably simple for many of you. I have a tibble that contains a list of categories with values next to them related to that category. I want to create a dataset from these values. For this I create a new tibble. In a column I draw one of the categories at random (function sample, replace =T). In the second column I want to add noise to the characteristic value of this category. My problem is to find out how to refer to the cell that is relative to this particular category in another table.

Here is an exemple :

...

ANSWER

Answered 2021-May-16 at 11:59

One approach is to simply sample beforehand, store it in s, and then subset carac$class and carac$weight with s:

Source https://stackoverflow.com/questions/67556355

QUESTION

Retrieve data from two columns of csv file based on user input

Asked 2021-Jan-07 at 16:38

I have this csv file named sample.csv:

...

ANSWER

Answered 2021-Jan-07 at 16:23

If you want to include both conditions

Source https://stackoverflow.com/questions/65616103

QUESTION

Protocol Buffer Corrupting Data

Asked 2020-Dec-21 at 03:18

This is my first question on here and first project on my own. I have a client (C++ on Windows 10) using the SimConnect SDK to pull data from the Prepar3D Flight Simulator and a server (C on Ubuntu) that is receiving this data. I am using sockets and Protocol Buffers. The client receives the data from the sim, maps it to a protocol buffer and sends it. The server receives it from the socket, decodes the protocol buffer and then processes it. The issue is that the last field (dWindDirection) is always corrupted on the receiving end. I'm not entirely sure how/why it's being corrupted but it's consistent as in the same input to the socket always leads to the same corrupted output from the socket. I followed Protocol Buffer over socket in C++ for the use of protocol buffers over a socket. I have included my code below as well as the output.

Source code can also be found here. https://github.com/nbreen/Simconnect-Data-Client

Client function that sends the protobuff

...

ANSWER

Answered 2020-Dec-19 at 12:50

If you look at the raw hex values for the dWindDirection, they are:

Source https://stackoverflow.com/questions/65367111

QUESTION

Tidy multiple anovas

Asked 2020-Dec-14 at 00:49

I have tidy data, and followed the example here.

Worked on my office computer, doesn't on my home computer. Now I get:

...

ANSWER

Answered 2020-Dec-14 at 00:49

The difference working on home and work computers may be related to version of dplyr and/or broom?

Instead of group_by try using nest_by (dplyr version 1.0.0) and run your model on each row of nested data. Using nest_by will create a new temporary list column data. It is similar to previously using nest and rowwise. The model needs to be in list as well here.

Source https://stackoverflow.com/questions/65281182

QUESTION

If cell has 2 words, extract only 1st word and if cell has 3 words, extract 2 first words - PANDAS/REGEX

Asked 2020-Oct-24 at 18:21

In my DataFrame, I have column named 'teams'. It includes the city and team name. I'd want to extract the city into another column. Here is the dataframe: DataFrame sample

...

ANSWER

Answered 2020-Oct-24 at 17:18

Don't struggle with regex for this, unless you find it very readable. Instead, starting with the string team_name ... split, slice, and join:

Source https://stackoverflow.com/questions/64515823

QUESTION

Stuck with SQL query need guidance

Asked 2020-Oct-02 at 10:29

I am a beginner in learning SQL can anyone help me making a SQL Query:

two tales:

users two columns:

id the unique user id
car owned the user

cars

car is the unique car name
garage who service the car

I need a select statement that return two columns id and garage considering of user id and the garage name where their car go for service . If a user's car is missing from cars table , the garage column should contain "Missing" instead. return the table sorted by user id's

Users table

...

ANSWER

Answered 2020-Oct-02 at 10:08

check this

Source https://stackoverflow.com/questions/64169264

QUESTION

How to prevent rerender when using react functional components

Asked 2020-Sep-22 at 06:37

I am exceeding my API uses due to the fact that everytime I change tabs on my site it makes a refreshes and makes all the API Calls over again. All the code provided is the component for the tabs, everything works properly just trying to prevent the refresh on tab switches. Is there any way to prevent this?

...

ANSWER

Answered 2020-Sep-22 at 06:37

You could create another component (e.g. ) that does the API call and renders passing the teams as props to . Changing the active tab inside would then still re-render but not and hence not call the API.

Source https://stackoverflow.com/questions/64003935

QUESTION

How to dynamically change a text from URL input?

Asked 2020-Aug-11 at 19:23

I want something like that..

https://pl.sports-streams-online.best/?st=nbastream.tv&plcm=db&q=Raptors+vs+Lakers

See that URL part q=Raptors+vs+Lakers, If i input any text on this section it will automatically change on website body. I want to know how i can do this. I will input a text in URL and it will display on website body.

Thanks for advance.

...

ANSWER

Answered 2020-Aug-11 at 19:23

You can parse window.location and put that into a div on your page. I can't show you in a code snippet because the snippets use an iframe but if your html has

then you can use javascript (after the page has loaded) to set the value of that div with results of the query param. lets say your url ends in ?st=nbastream.tv&plcm=db&q=Raptors+vs+Lakers, then you want the value for parameter 'q':

Source https://stackoverflow.com/questions/63364738

QUESTION

full_join adding extra rows and NA in r

Asked 2020-Aug-05 at 09:39

I have two data frames that I am trying to join using full_join, here is a subset of my data:

...

ANSWER

Answered 2020-Aug-05 at 09:28

The problem is that in your first data.frame the Team names have a trailing space. This means that instead of the string "Bucks" you have the string "Bucks ". These two strings cannot be joined.

Here is how you can fix your data. First delete leading spaces using sub and then transform the Team into a character vector. Then the full_join works as planned:

Source https://stackoverflow.com/questions/63261540

QUESTION

iterating over an array of semi-unique objects

Asked 2020-Aug-05 at 05:21

say you have an array of objects as shown at the bottom, how would you go about iterating over this array to get the results of every previous game played.
I basically got turned around when trying to iterate over values that didnt exist

...

ANSWER

Answered 2020-Aug-05 at 05:21

A little bit messy. But it works for the input

Source https://stackoverflow.com/questions/63252625

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

Vulnerabilities

No vulnerabilities reported

Install raptor

You can download it from GitHub.

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 .

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