News
Unipept 4.0
posted on 2019-01-21
Unipept 4.0 includes these major updates:
Check the release notes for a full list of changes.
- A completely new functional analysis tool
- An updated database based on UniProt 2018.06
Check the release notes for a full list of changes.
Unipept 4.0 changelog
posted on 2018-08-28
Unipept 4.0 consists of 272 commits and 91 changed files with 7,882 additions and 1,026 deletions. This includes these updates:
- added
- a completely new functional analysis view for Metaproteomics
- added
- a completely new functional analysis view for Tryptic peptide analysis
- improved
- the waiting expirience of a Metaproteomics Analysis
- improved
- strain names in peptidome analysis to be more clear
- fixed
- an issue that caused some proteome names to be cut off at a certain length
- improved
- the confidentiality of your metaproteomics datasets
- improved
- the test coverage of our frontend code
- improved
- the pipeline to work for larger Uniprot releases
- updated
- various dependencies
- updated
- to UniProt 2018.06
- added
- extra functional information to the API
Unipept 3.3
posted on 2017-11-14
Unipept 3.3 includes these major updates:
- a complete rewrite of the metaproteomics analysis
- an updated database based on UniProt 2017.10
Unipept 3.3
posted on 2017-11-14
Unipept 3.3 consists of 137 commits and 128 changed files with 9,244 additions and 3,820 deletions. This includes these updates:
- improved
- completely rewrite the metaproteome analysis
- improved
- restructure all javascript code
- fixed
- an issue with the copy to clipboard button
- fixed
- a crash when searching for an empty query
- updated
- to rails 5.1
- updated
- to UniProt 2017.10
- fixed
- An issue with an incompatible JavaScript file
- fixed
- An issue with the API "try it" feature
- improved
- query performance of proteome loading
- improved
- the proteome preload scripts
- improved
- faster and more correct missed cleavage handling
- improved
- the MPA progress indication
- removed
- the obsolete export checkbox on the MPA form
- fixed
- An issue with the form help tooltips on the MPA result page
- fixed
- An issue with the treemap colors
- fixed
- An issue with the sunburst visualisation
- fixed
- An issue by adding a fetch polyfill
Unipept 3.2
posted on 2017-08-22
Unipept 3.2 includes these major updates:
Check the release notes for a full list of changes.
- https and rails 5 support
- an updated database based on UniProt 2017.05
Check the release notes for a full list of changes.
Unipept 3.2 changelog
posted on 2017-06-27
Unipept 3.2 consists of 147 commits and 150 changed files with 1,983 additions and 1,350 deletions. This includes these updates:
- added
- a configure script for the make file
- added
- ec number and go term information to the database
- improved
- the performance of downloading proteome data
- improved
- the error resilience of the make file and scripts
- fixed
- an issue where not all type strains were added to the proteomes
- fixed
- an issue where the unique peptide finder could crash when requesting 0 sequences
- updated
- the publications section and about page
- updated
- to https and http2
- updated
- to rails 5
- updated
- to ruby 2.4
- updated
- to UniProt 2017.05
Unipept 3.1
posted on 2016-06-08
Unipept 3.1 includes these major updates:
Check the release notes for a full list of changes.
- a faster peptidome analysis based on UniProt proteomes
- an updated database based on UniProt 2015.12
Check the release notes for a full list of changes.
Unipept 3.1 changelog
posted on 2015-12-11
Unipept 3.1 consists of 84 commits and 75 changed files with 1,158 additions and 921 deletions. This includes these updates:
- added
- UniProt proteomes as data source for the peptidome analysis instead of assemblies
- added
- Type strains and reference proteomes markers in the proteome selector
- improved
- The loading speed of proteomes by 3 to 5 times
- improved
- The unique peptidome calculation speed of proteomes by 5 to 25 times
- improved
- The sequence download speed of peptidomes by 3 to 5 times
- improved
- The taxon invalidation rules for viruses
- fixed
- an issue where virus names were abbreviated in the peptidome analysis where they shouldn't
- fixed
- a bug where the API could return an error 500 in an obscure case
- fixed
- a bug where the invalid input would result in an error 500 when converting peptides
- fixed
- a bug where the TPA would crash for non-ascii input
- updated
- rails to 4.2.5
- added
- Our Bioinformatics publication
- improved
- The peptidome clustering to improve speed up to 30 times
- fixed
- An issue with the "Download Data" button of the unique peptide finder
- updated
- UniProt to 2016.01
- updated
- UniProt to 2016.02
- added
- Protein download from the Unique Peptide Finder
- updated
- UniProt to 2016.05
Unipept 3.0
posted on 2015-07-31
Next to a new design, Unipept 3.0 includes:
- a command line tool
- a completely rewritten Peptidome Analysis
Unipept 3.0 changelog
posted on 2015-07-31
Unipept 3.0 consists of 438 commits and 337 changed files with 10,504 additions and 5,978 deletions. This includes these updates:
- added
- A completely new redesign
- added
- Use Assemblies instead of Bioprojects as data source for the proteomes
- added
- A command line tool and documentation
- added
- Auto-resume for a previous peptidome analysis
- added
- Draft genomes to the peptidome analysis
- added
- Type strain info to the peptidome analysis
- added
- A new method of adding proteomes to the peptidome analysis
- added
- Shift + click on a node to expand all treeviews
- added
- A notification system
- added
- Protein names to the tryptic peptide analysis results
- added
- Protein names to the pept2prot API output
- added
- The possibility to leave an email address on encountering an error
- added
- The UniProt version in the footer
- added
- A rewritten version of the uniprot parser using make files and berkeley DB
- added
- Copy to clipboard button for Tryptic Peptide Analysis
- added
- An open in UniProt button for Tryptic Peptide Analysis
- fixed
- An issue where the names of "My proteomes" were incorrectly abbreviated in some cases
- fixed
- An issue where IndexedDB was broken in Safari
- fixed
- An issue where the input order was not preserved for the taxonomy API call
- fixed
- A bug where the my proteomes popover wouldn't open once a pancore popover was shown
- fixed
- A bug where the pancore popover was still present after a remove all
- fixed
- An issue where text was selected during drag-to-reorder in the pancore graph
- fixed
- An issue where a few JavaScript errors were shown when loading the TPA tree
- fixed
- An issue where the application crashed when a user submitted non-ascii characters in the multi-peptide analysis
- updated
- ruby to 2.2.2
- updated
- rails to 4.2.3
- updated
- D3.js to 3.5.5
- updated
- bootstrap to 3.3.5
- fixed
- A bug where the JavaScript code might crash while updating My Proteomes
- fixed
- A bug where the Save Image popover was not clickable
- fixed
- A spacing issue in the peptidome clustering tooltip
- fixed
- An issue with the font sizes in the peptidome clustering visualisations
- fixed
- A bug where peptidome analysis became unresponsive after using the "clear all"-button in IE11
- fixed
- An issue with the autosort tooltip in Firefox and IE
- fixed
- A bug where searching for a combined peptide in the TPA might cause a crash