canvas | Copy number variant calling from DNA sequencing data | Genomics library
kandi X-RAY | canvas Summary
kandi X-RAY | canvas Summary
Canvas is a tool for calling copy number variants (CNVs) from human DNA sequencing data. It can work either with germline data, or paired tumor/normal samples. Its primary input is aligned reads (in .bam format), and its primary output is a report (in a .vcf file) giving the copy number status of the genome. Canvas is used as the copy number caller in the Isaac Whole Genome Sequencing workflow in BaseSpace (and in HiSeq Analysis Software (HAS) (Canvas is written in C# and runs either under a recent version of Mono (e.g. 3.10.0), .NET 4.5.1 and .NET Core 1.1. For more information about Canvas and the algorithms it uses see the [software design description][SDD]. Note: Germline-WGS mode has been deprecated. Use SmallPedigree-WGS even for a single sample analysis. Copyright (c) 2013-2017 Illumina, Inc. All rights reserved. This software is provided under the terms and conditions of the GNU GENERAL PUBLIC LICENSE Version 3. You should have received a copy of the GNU GENERAL PUBLIC LICENSE Version 3 along with this program. If not, see Canvas includes several third party packages provided under other open source licenses, please see [COPYRIGHT.txt] COPYRIGHT.txt) for additional details.
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Currently covering the most popular Java, JavaScript and Python libraries. See a Sample of canvas
canvas Key Features
canvas Examples and Code Snippets
Lines of Code : 24License : Permissive (MIT License)
Copydef run(canvas: list[list[bool]]) -> list[list[bool]]:
"""This function runs the rules of game through all points, and changes their
status accordingly.(in the same canvas)
@Args:
--
canvas : canvas of population to run the ru def seed(canvas: list[list[bool]]) -> None:
for i, row in enumerate(canvas):
for j, _ in enumerate(row):
canvas[i][j] = bool(random.getrandbits(1)) def create_canvas(size: int) -> list[list[bool]]:
canvas = [[False for i in range(size)] for j in range(size)]
return canvas Community Discussions
Trending Discussions on canvas
QUESTION
When I read data from GPS sensor, it comes with a slight delay. You are not getting values like 0,1 0,2 0,3 0,4 0,5 etc, but they are coming like 1 then suddenly 5 or 9 or 12. In this case needle is jumping back and forth. Anybody have an idea how to make needle moving smoothly? I guess some kind of delay is needed?
Something like, taken from another control:
...ANSWER
Answered 2022-Mar-21 at 22:09Coming from a controls background, to mimic behavior of an analog device, you could use an exponential (aka low-pass) filter.
There are two types of low-pass filters you can use, depending on what type of behavior you want to see: a first-order or second-order filter. To put it in a nutshell, if your reading was steady at 0 then suddenly changed to 10 and held steady at 10 (a step change), the first order would slowly go to 10, never passing it, then remain at 10 whereas the second order would speed up its progress towards 10, pass it, then oscillate in towards 10.
The function for an exponential filter is simple:
QUESTION
I am trying to solve a problem without success and am hoping someone could help.
I have looked for similar posts but haven't been able to find anything which solves my problem.
My Scenario is as follows:
I have a UIView on which a number of other UIViews can be placed. These can be moved, scaled and rotated using gesture recognisers (There is no issue here).
The User is able to change the Aspect Ratio of the Main View (the Canvas) and my problem is trying to scale the content of the Canvas to fit into the new destination size.
There are a number of posts with a similar theme e.g:
calculate new size and location on a CGRect
How to create an image of specific size from UIView
But these don't address the changing of ratios multiple times.
My Approach:
When I change the aspect ratio of the canvas, I make use of AVFoundation to calculate an aspect fitted rectangle which the subviews of the canvas should fit:
ANSWER
Answered 2022-Feb-06 at 10:03Here are a few thoughts and findings while playing around with this
1. Is the right scale factor being used?
The scaling you use is a bit custom and cannot be compared directly to the examples which has just 1 scale factor like 2 or 3. However, your scale factor has 2 dimensions but I see you compensate for this to get the minimum of the width and height scaling:
QUESTION
My chart y labels are cut off and by trying different solution found on stackoverflow like adding spaces in labels or setting layout padding did not solved the problem.
The code
...ANSWER
Answered 2022-Jan-26 at 16:52The sampleSize property in your y axis config is the culprit, since you put it to 1 it only looks at the first tick for the length that it can use. But other data in your array is way larger so it wont fit. Removing this property or making it a bigger number so it would sample more ticks will resolve your behaviour (removing will give most consistent results).
QUESTION
I would like to be able to robustly stop a video when the video arrives on some specified frames in order to do oral presentations based on videos made with Blender, Manim...
I'm aware of this question, but the problem is that the video does not stops exactly at the good frame. Sometimes it continues forward for one frame and when I force it to come back to the initial frame we see the video going backward, which is weird. Even worse, if the next frame is completely different (different background...) this will be very visible.
To illustrate my issues, I created a demo project here (just click "next" and see that when the video stops, sometimes it goes backward). The full code is here.
The important part of the code I'm using is:
...ANSWER
Answered 2022-Jan-21 at 19:18The video has frame rate of 25fps, and not 24fps:
After putting the correct value it works ok: demo
The VideoFrame api heavily relies on FPS provided by you. You can find FPS of your videos offline and send as metadata along with stop frames from server.
The site videoplayer.handmadeproductions.de uses window.requestAnimationFrame() to get the callback.
There is a new better alternative to requestAnimationFrame. The requestVideoFrameCallback(), allows us to do per-video-frame operations on video.
The same functionality, you domed in OP, can be achieved like this:
QUESTION
So,
In my WPF application, I want my users to be able to open previews of invoices, so that they may either verify or discard them. I am letting them check rows (each row representing a invoice) in a DataGridCheckBoxColumn in my DataGrid, then clicking a button (which runs my CreateInvoicePreview() method, see bottom of post), having all of the invoice previews be opened in new windows (one window for each invoice).
Well.. What happens now, is: User checks InvoiceA and InvoiceB. Two invoices are opened, but they are the same: InvoiceC. The correct amount of invoices are always opened, but not the correct instance. If I open the temp folder specified in my file path, I see that all invoices in the datagrid has been saved: InvoiceA through InvoiceJ.
Let me take you through the code.
This is the method that creates that builds and saves the actual PDF's, which the WebView2 control uses as source, so that it can display them in-app. It is heavily abbreviated.
I have kept the structure with the nested foreach loops in case that is relevant.
ANSWER
Answered 2022-Jan-19 at 14:26I managed to solve this by doing the following:
I made a property; public static string PreviewedInvoice { get; set; } in the ViewModel of the parent window. In my method that opens the child window (where the preview invoices are to be displayed) I bind it to LicenseHolderID of the rows that have a checked CheckBox, via foreach loop, like such:
QUESTION
I really hope I haven't gone down a dead-end here. I have a Behaviour that gives the currently selected Color, and the current mouse coordinates, then carries out a task when the mouse is clicked. That task involves looking at a list and then updating the values in that list, for it to be retrieved later. The fact that I can "store" the selected color gives me hope that storing a list can be done in a similar manner. I'm just at a dead end and not sure how to solve this. Would really appreciate some help.
...ANSWER
Answered 2022-Jan-17 at 16:02Full credit to this response from duplode, I'll just go through how it was solved:
Let's say we have a function that modifies a list somehow, depending on some value. How/why updateMyList modifies the list doesn't really matter for this explanation, we just need to know its type. For this example, we'll say the value that determines how the list changes is a mouse coordinate tuple (x, y), which we'll pass as its first parameter:
QUESTION
Python 3.9 on Mac running OS 11.6.1. My application involves placing a plot on a frame inside my root window, and I'm struggling to get the plot to take up a larger portion of the window. I thought rcParams in matplotlib.pyplot would take care of this, but I must be overlooking something.
Here's what I have so far:
...ANSWER
Answered 2022-Jan-14 at 23:23try something like this:
QUESTION
[Editing this question completely] Thank you , for those who helped in building the Periodic Table successfully . As I completed it , I tried to link it with another of my project E-Search , which acts like Google and fetches answers , except that it will fetch me the data of the Periodic Table .
But , I got a problem - not with the searching but with the layout . I'm trying to layout the x-scrollbar in my canvas which will display results regarding the search . However , it is not properly done . Can anyone please help ?
Below here is my code :
...ANSWER
Answered 2021-Dec-29 at 20:33I rewrote your code with some better ways to create table. My idea was to pick out the buttons that fell onto a range of type and then loop through those buttons and change its color to those type.
QUESTION
(Solution has been found, please avoid reading on.)
I am creating a pixel art editor for Android, and as for all pixel art editors, a paint bucket (fill tool) is a must need.
To do this, I did some research on flood fill algorithms online.
I stumbled across the following video which explained how to implement an iterative flood fill algorithm in your code. The code used in the video was JavaScript, but I was easily able to convert the code from the video to Kotlin:
https://www.youtube.com/watch?v=5Bochyn8MMI&t=72s&ab_channel=crayoncode
Here is an excerpt of the JavaScript code from the video:
Converted code:
...ANSWER
Answered 2021-Dec-29 at 08:28I think the performance issue is because of expandToNeighbors method generates 4 points all the time. It becomes crucial on the border, where you'd better generate 3 (or even 2 on corner) points, so extra point is current position again. So first border point doubles following points count, second one doubles it again (now it's x4) and so on.
If I'm right, you saw not the slow method work, but it was called too often.
QUESTION
I need to create circles in canvas using fabric. Every click, there is a circle created. However, if the new circle created it will replace old circle. This my stackblitz demo.
HTML
...ANSWER
Answered 2021-Dec-30 at 04:14The problem is that you're repeatedly creating the Canvas object, which is likely resulting in the canvas element being drawn over multiple times in separate instances. That is, every new instance will only ever contain the most recent circle and will draw over the previous instance. What you want to do is create the instance once and then reference that instance each time moving forward.
In your code snippet above, it could look something like this:
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