Main changes:

Cluster before sorting. Usage: decrease or increase the number of clusters by pressing left or right SHIFT key. (no clustering while number of cluster is one).
Raised the maximum numbe of contigs to 16384 to avoid overflow problem. (Note: We use the remainder for segmentation. For example, 0 and 16384+0 belong to the same original contig. However, they are segmented into different fragments. Similarly, 10 and 16384+10 also belong to the same original contig, but are segmented into different fragments. Thus if the orignal number of contigs is larger than 16384, it will be treated as the same original contig but defferent fragments.)
Fixed some bugs.

Assets 6

07 Apr 14:41

guanshaoheng

1.0.3

1d72a75

PretextView - 1.0.3

Name the Sort and Cut functions as `Pixel Sort` and `Pixel Cut`.

Main changes:

changed to use key F to toggle select sort area mode.
added Pixel Cut function, which can be used in global mode (by left clicking button in main menu) or select sort area mode.
- the pixel discontinuity is calculated and pushed to extensions automatically while loading the .pretext file
- the Pixel Cut is implemented by adding 4096(max number of contigs) to the original_contig_id.
- sensitivity can be adjusted by setting the cut threshold in the Pixel Cut setting window, which can be opened by right click the Pixel Cut button in main menu.
- add up/down arrow key under select sort area mode to increase / decrease the cut threshold.
modified the local sort function:
- fixed the two ends while sorting locally
- add left/right arrow key under select sort area mode to switch the sorting algorithom.
added Select Active Tag in the main menu to select the active meta tag to label the fragments.
added Grey Out Tags to select the tags to be coved with grey mask.
fixed bug of copying high resolution contact matrix buffer to cpu: used to make the sort and cut function doesn't work withi high resolution samples.
optimized the link score calculation:
- modifying the weight vector from linear to non-linear;
- add extra 5 pixels length to the weight vector to make the link scores lower for fragments with short length. The shorter the weight is relatively lower.
added color blind color map.
added the color settings for selected area in user profile.
move invert mouse setting to user profile.

Assets 6

27 Feb 18:13

additive3

1.0.1

6c646b5

PretextView 1.0.1 (Three platforms supported)

Windows-x86_64, Linux-x86_64, Mac-x86_64, and Mac-arm64 are supported.
Fixed path error for shader source files.
Fixed crash down problem for Windows while using YAHS sort. This error is caused by the uninlitilised pointers within the object in the fragment sort source code.
Fixed torch lib error for Linux, currently the AI model is excluded from this release. In the future we are going to introduce the AI module inside, which will include the torch library again.
Add deploy.yml which will automatically run and upload the install packages to the release page. This deploy action will start when new tag is created.

NOTE for Mac user who downloads this from Release page. If the user is told that the software is damaged, please eject the mounted dmg file and run

xattr -d com.apple.quarantine /path/to/the/downloaded/dmg/file

to remove the quarantine and re-mount the dmg file. And then try to open the PretextViewAI.app.

Assets 6

23 Jan 16:32

additive3

1.0.0

9b61687

PretextView 1.0.0

What's Changed

Features added:

Automatic curation: YaHS algorithm sorting of contigs, globally or locally within selected area
UserProfile function: background color, color map, meta tag style, extension graph style
Input sequence search and adaptive zoom locating
Jump to diagonal after fragment selection whilst in edit mode
Change to waypoints - vertical, horizontal, cross
Embedded extension track toggle menu (x)
Top level extension track toggle for "coverage" and "gap"
Updated Metadata tags list
Metadata tags sorting function
Map cache clear function
Compile script is changed from meson to CMake
Icon updates to new version v1.0.0