Added dynseq track and updated the CHANGELOG

Author: pkerpedjiev

CHANGELOG.md

@@ -1,62 +1,4 @@
-v1.2.0
-
-- Soft and hard clipped regions are now included in the calculation of an appropriate row for a read. Without that, clipped regions would often overlap with other reads
-- New option `maxTileWidth` that controls when the "Zoom to see details" message is shown
-- New option `collapseWhenMaxTileWidthReached`. When this is set, the track height will be set to 20 when `maxTileWidth` is reached. This can be useful when there are a lot of tracks and you want to zoom out. With this option the pileup track will only take minimal space as long as you are zoomed out, so that it is easier to look at the other tracks.
-- Resolved some issues with a flickering "Zoom to see details" message.
-
-v1.0.1
-
-- Render BAM file tiles returned by resgen server
-
-v1.0.0
-
-- Added small example files to check non-standard reads (deletions, soft/hard clipping)
-- Build out `es` modules when `npm run build` is executed
-- Add option `workerScriptLocation`. This is needed when the worker script is not in the same folder as the pileup script
-- The client side data fetcher now accepts `bamUrl` and `baiUrl`. `url` is still supported
-- Added options `plusStrandColor` and `minusStrandColor`. When set, the reads are colored according to their strand.
-- Added the option `showCoverage` and `coverageHeight`, which displays read coverage information on top of the track
-- Improved mouseovers for reads and coverage
-- Bumped version of GMOD/bam-js. New version allows to retrieve the read sequence
-- Variants are now correctly colored based on the read sequence.
-- Added visualization of reads that contain hard clipping
-- Fixed a bug where MD strings would not be correctly parsed, when a deletion is present, e.g., `85^A16`
-- Added vertical stripes to represent deletions.
-- When there is soft clipping at the beginning of a read, substitutions that are following are now correctly extracted
-- Reads have been shifted by one. It now lines up with the sequence track and the bam file
-
-v0.4.0
-
-- Added customizeable color scheme
-
-v0.3.5
-
-- Added label position options
-
-v0.3.4
-
-- Highlight reads on mouseOver
-- Show nearest mismatch in mouseover popup
-- Enabled the showMousePosition option
-
-v0.2.2
-
-- Implemented exportAsSvg
-
-v0.2.1
-
-- Column higlass server format
-- Warning when zoomed out beyond `max_tile_width`
-
 v0.2.0
 
-- Support for higlass server-served tiles
-
-v0.1.1
-
-- Upgraded threads.js and added getThisScriptLocation so that the worker is pulled from the same location as the main script
-
-v0.1.0
-
-- First working version
+- Added dynseq track
+- Fixed higlass-pileup import

package-lock.json

@@ -40,13 +40,14 @@
     "eslint-plugin-jsx-a11y": "^6.0.3",
     "eslint-plugin-react": "^7.7.0",
     "file-loader": "^1.1.11",
-    "higlass": "^1.10.1",
+    "higlass": "^1.11.7",
     "html-loader": "^0.5.5",
     "html-webpack-plugin": "^3.1.0",
     "node-sass": "^4.8.3",
     "optimize-css-assets-webpack-plugin": "^4.0.0",
     "postcss-flexbugs-fixes": "^3.3.0",
     "postcss-loader": "^2.1.3",
+    "prettier": "^2.4.1",
     "sass-loader": "^7.0.1",
     "string-replace-loader": "^2.2.0",
     "style-loader": "^0.20.3",
@@ -73,13 +74,14 @@
     "d3-request": "^1.0.6",
     "d3-scale": "^3.0.1",
     "higlass-arcs": "^0.3.3",
+    "higlass-dynseq": "^0.1.5",
     "higlass-labelled-points-track": "^0.1.16",
+    "higlass-multi-tileset": "^0.1.1",
     "higlass-multivec": "^0.2.10",
-    "higlass-pileup": "^1.2.0",
+    "higlass-pileup": "^1.3.1",
     "higlass-register": "^0.1.0",
     "higlass-transcripts": "^0.3.4",
     "lru-cache": "^6.0.0",
-    "prettier": "^2.1.2",
     "raw-loader": "^4.0.2",
     "threads": "v1.6.3"
   }