https://github.com/branniganlab/blobulator - v0.9.8

What's Changed

• Add sequence to x-axis of charts by @ttjoseph in https://github.com/BranniganLab/blobulator/pull/238
• Adding x-axis functionality to the production branch by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/241
• updating version number by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/242
• updating disorder plot title by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/244
• dSNP enrichment track by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/250
• Fixing Ensembl ID bug by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/253
• Result page bug fixes by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/261
• Snp links by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/265
• Bug fixes by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/266
• solving issue #264 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/267
• Y axis fixes, s blob height fix by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/272
• Hydro scale ticks by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/276
• Newheader by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/277
• Skyline was broken if last residue different from the previous one by @ttjoseph in https://github.com/BranniganLab/blobulator/pull/275
• updating ordered fration colorbar and tooltip text to reflect the title change by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/278
• updating ordered fraction colorbar ticks by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/279
• Improve hydropathy amino acid scale appearance by @ttjoseph in https://github.com/BranniganLab/blobulator/pull/281
• Aahydropathy by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/282
• Disorder track titles by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/283
• changing copywright date on error page, issue #273 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/284
• issue #280, fixing p, s, h label positions to be centered on the bar … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/285
• Track spacing by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/287
• extending table so it covers track legends, removing B and Z from kyt… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/291
• moving smoothed hydropathy per residue track title up so that it dose… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/292
• setting the size of result-controls based on viewport width by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/293
• adding a blank column to result controls, scaling the column with ami… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/294
• Ability to submit Ensembl ID by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/295
• Fix slider by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/296
• Snp enrich by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/297
• updating i and zoom tooltips to be the correct height on each track by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/298
• inserting h s and p labels into blob track legend by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/301
• Snp rs numbers added by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/305
• Changing hydropathy resdiue font by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/307
• rs link fix, issue #306 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/308
• increasing text size and adjusting placement for hydropathy y axis la… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/309
• moving x axis title down so it does not clash with the residue tick x… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/310
• changing blob track legend by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/313
• adjusting the residue x-axis label for the non-snp x-axis by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/314
• Fix slider ticks by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/315
• moving smoothed hydropathy calculation into its own function, adding … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/318
• issue #317, adding space between Hydropathy graph and blobs colored a… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/319
• Mutation indicator by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/320
• issue #316, fixing prediction structured fraction colorbar by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/322
• adding new proc for hydropathy shift by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/323
• fixing title and color bar ticks by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/327
• issue #325, fixing line 393 in computeblobs.py by adding groupkeys=… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/328
• adding indicators for custom mutations - they are now diamonds that o… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/329
• custom mutation indicators now update when the zoom function is used by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/330
• protein name appears at the top of result page if uniprot ID is used by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/331
• if protein details field is blank, line will no longer show up with P… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/332
• moving x axis down so that it doesn't overlap with custom mutation in… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/336
• adding conditional to filter out deleterious SNPs by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/339
• removing print statment that prints all alternative sequences to the … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/340
• updating snp triangles and custom mutations so that they are between … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/341
• Result page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/343
• Test for errors in converting non-uniprot ids to uniprot ids added, n… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/345
• removing outer math.round statement which was causing zooms with betw… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/346
• added genomic location api lookup, response processing, and result pa… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/349
• custom sequence now works by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/351
• adding filter for insertions by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/353
• Hg identifier by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/354
• manual entry now strips newlines by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/357
• switch to new snp on right click functionality issue #219 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/358
• adding click to change functionality for snp triangles, issue #219 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/361
• adding an FAQ explanation for the clickable amino acid labels by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/362
• File restructure by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/338
• Genomic coordinates by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/364
• text edits to the amino acid letter description under the FAQ page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/366
• removing clickability from custom id name by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/367
• Standalone bugfix by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/370
• fixing issue #363 by adding explicit duration timing values, making w… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/371
• Documentation by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/372
• updating docstrings so that each docstring has a description of what'… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/375
• updating warning at the bottom of screen to only say smart phone by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/376
• updating to the correct version number by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/378
• setting tooltip snp popups to disappear more slowly issue #379 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/380
• making popup windows last for slightly longer than previously by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/381
• Request to pull main into production by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/383
• added print specification to css file so that sliders show up when pa… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/388
• changing Download Plots! to print screen by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/390
• removing stri and strj which are unused, as well as updating html d… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/391
• added right margin when page is printed in style.css by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/392
• Merging main into production by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/394
• adding FAQ section that gives a temporal caveat for blobulating large… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/395
• changing lookup_ncpr function to have matplotlib create and normalize… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/396
• rescaling color bar to be between -0.5 and +0.5 for push to production by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/397
• updating version to 0.9.4 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/399
• NCPR track bug solution by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/400
• adding page viewport scaling line by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/401
• trying removing shrink to fit line in meta tag in common.html by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/402
• rescaling to be between -0.2 and 0.2 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/406
• Putting the core blobulator into a package by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/404
• fixing enrichment bug by changing calculation from minimum hydrophobi… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/413
• reverting average hydropathy change, implementing minimum smoothed h… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/419
• adding documentation and enrichment track fix to match changes made t… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/422
• Refactor vmd bctool by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/407
• Compute blobs group error by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/427
• Heading change by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/429
• fixing misc spelling errors from FAQ page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/430
• adding clickable github link to about page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/431
• misc word changes and punctution for the about page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/432
• Heading change by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/433
• extending the amount of time that snp information box stays on sreen … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/438
• changing the citing the blobulator section on the about page to point… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/437
• Mobile device by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/445
• fixing snp bug issue #443 by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/446
• Landing Page Overhaul by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/448
• created code that can handle multiple chains in the sequence by @RL0109 in https://github.com/BranniganLab/blobulator/pull/458
• adding function that changes the defult id when the chosen input type… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/460
• adding algorithm description to about page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/461
• Use a thread pool to do all external web API calls simultaneously (in the blobulator website) by @ttjoseph in https://github.com/BranniganLab/blobulator/pull/464
• HOT FIX: check if API calls are returning something by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/466
• revising text and removing a and b from figure by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/468
• Tcl blobulation chain by @RL0109 in https://github.com/BranniganLab/blobulator/pull/470
• made function and variable names more descriptive, changed instances … by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/471
• Tcl blobulation by @RL0109 in https://github.com/BranniganLab/blobulator/pull/456
• Pulling hotfixes from production into main by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/476
• Update CHANGE_LOG.md by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/477
• HOTFIX: 478 jupyter notebook cleaning by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/479
• Pulling main into production by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/475
• 481 hotfix dependencies (main) by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/482
• dependencies now mirrored in pyproject.toml by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/483
• Hotfix lookup color uversky by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/485
• renaming one lookupcoloruversky to lookupnumberuversky by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/486
• Download data iss449 by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/450
• 488 amino ID by @RL0109 in https://github.com/BranniganLab/blobulator/pull/489
• Changed color scale to go down a blue gradient instead of red. by @RL0109 in https://github.com/BranniganLab/blobulator/pull/491
• Default buttons by @RL0109 in https://github.com/BranniganLab/blobulator/pull/493
• 494 strong color gradient by @RL0109 in https://github.com/BranniganLab/blobulator/pull/495
• 497 amino acid detection error by @RL0109 in https://github.com/BranniganLab/blobulator/pull/499
• Changed return statement and also specifies atomselect by @RL0109 in https://github.com/BranniganLab/blobulator/pull/505
• Add moon fleming scale by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/502
• 434 overhaul landing page by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/514
• Namespace added to GUI and blobulation by @RL0109 in https://github.com/BranniganLab/blobulator/pull/507
• Changed window title from blobulator to blobulation. by @RL0109 in https://github.com/BranniganLab/blobulator/pull/531
• 527 cli is not installed along with the python package by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/529
• 530 encrichment mutations track by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/533
• Fixing bug that caused the skyline to still be drawn if the enrichmen… by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/534
• 530 center text by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/537
• updating blobulator_header.ai by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/545
• Update CHANGE_LOG.md by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/540
• Regression test hotfixes by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/539
• Pulling main into production by @cpitman-11 in https://github.com/BranniganLab/blobulator/pull/546
• Revert bad commits by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/559
• HOTFIX: richFig wasn't being updated properly by @EzryStIago in https://github.com/BranniganLab/blobulator/pull/561

Full Changelog: https://github.com/BranniganLab/blobulator/compare/0.9.0-beta...0.9.8

- Python
Published by EzryStIago 9 months ago

https://github.com/branniganlab/blobulator - blobulator-pnas-beta

This functional beta release accompanies the paper "Contiguously hydrophobic sequences are functionally significant throughout the human exome" by Ruchi Lohia, Matthew E.B. Hansen, and Grace Brannigan, PNAS 2022.

- Python
Published by cpitman-11 almost 4 years ago