Trinotate-v3.1.1

@brianjohnhaas brianjohnhaas released this Dec 4, 2017 · 6 commits to master since this release

patch release, was missing an html template file required for TrinotateWeb.

Trinotate-v3.1.0 Release

@brianjohnhaas brianjohnhaas released this Oct 24, 2017 · 7 commits to master since this release

-includes Trinotate report summary statistics and web report.
-custom search results are only reported for blastp or blastx (not assuming both were performed).

Trinotate Release v3.0.2

@brianjohnhaas brianjohnhaas released this Mar 3, 2017 · 48 commits to master since this release

minor patch release, no change in functionality.

developer notes:

removed ' set -eou pipefail ' for now.

included pull req: changes $FindBin::Bin to $FindBin::RealBin to deal w/ resolving symlinks

Trinotate v3.0.1

@brianjohnhaas brianjohnhaas released this Apr 12, 2016 · 54 commits to master since this release

Includes updates to the report table output formatter to better ensure column alignment w/ results, and removing any tab or newline chars in annotations that would go into the tab-delimited fields and cause offsets.

Trinotate Release v3.0.0

@brianjohnhaas brianjohnhaas released this Mar 8, 2016 · 66 commits to master since this release

-updated resources based on currently available data (swissprot, pfam, go, etc.)
-incorporating Kegg annotations
-including auto-trinotate to facilitate computations and database loading.
-support for lighttpd as the webserver for TrinotateWeb
-releasing the boilerplate database build process, in case anyone ever wants to roll their own based on the latest swissprot, pfam, etc.
-dropping explicit support for Trembl
-added custom database search functionality. If you want trembl, just search it as a custom database.
-updated sample data using latest version of Trinity assembly and functional analysis computations.

Trinotate Release 2.0.2

@brianjohnhaas brianjohnhaas released this May 1, 2015 · 106 commits to master since this release

TrinotateWeb components are updated for improved compatibility with the new Trinity identifiers (TR|c...)

The run_mongoose_server.sh, when given any command line arguments, will use a locally installed version of canvasXpress libraries. By default, it uses them live over http from the main canvasXpress site.

Trinotate v2.0.1

@brianjohnhaas brianjohnhaas released this Feb 6, 2015 · 117 commits to master since this release

double-clicking on a gene/transcript graph point opens up a new window instead of replacing the current volcano or MA plot page (which is intensive to draw).

Trinotate v2.0.0 (Feb, 2015)

@brianjohnhaas brianjohnhaas released this Feb 6, 2015 · 120 commits to master since this release

Database resources are updated to Jan,2015 versions of UniProt (swissprot and uniref90), PFam, and GO.

A single sqlite boilerplate database is provided with both swissprot and uniref90 support.

The mongoose webserver is now recommended for use with TrinotateWeb

TrinotateWeb has been heavily refined, with a facelift and related engineering spearheaded by Leonardo Gonzalez.

Pre-release

v1.1 Trinotate, pre-2.0 release

@brianjohnhaas brianjohnhaas released this Jan 31, 2015 · 150 commits to master since this release

post-migration from sourceforge
Includes Leonardo Gonzalez's UI overhaul and query optimizations