tripal/tripal

The Tripal package is a suite of Drupal modules for creating biological (genomic, genetic, breeding) websites. Visit the Tripal homepage at http://tripal.info for documentation, support, and other information. The Drupal project page is at http://drupal.org/project/tripal.

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tripal/tripal_doc

Official Documentation for the Tripal Platform

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tripal/tripal_analysis_expression

Extension module for the Tripal toolset to show differential expression data. This module was made for Drupal 7, Tripal 3, and Chado 1.3.

Language: PHP - Size: 5.06 MB - Last synced at: 16 days ago - Pushed at: 6 months ago - Stars: 4 - Forks: 11

tripal/tripal_blast

Provides an user interface to BLAST on Tripal sites.

Language: PHP - Size: 83.3 MB - Last synced at: 16 days ago - Pushed at: 6 months ago - Stars: 5 - Forks: 13

shreyas-a-s/oneclick-website-deployer

Bash script to install and setup a basic working drupal website with tripal module installed and activated.

Language: Shell - Size: 8.08 MB - Last synced at: 14 days ago - Pushed at: 7 months ago - Stars: 1 - Forks: 1

UofS-Pulse-Binfo/lims_rawseq

Drupal/Tripal: Provides a simple node type for recording Sequencing Run details.

Language: PHP - Size: 88.9 KB - Last synced at: 9 months ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

TripalCultivate/TripalCultivate-Phenotypes

Provides generic support for large scale phenotypic data and traits with importers, content pages and visualizations.

Language: PHP - Size: 799 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 1 - Forks: 0

tripal/trpfancy_fields

Provide additional fields to jazz up your Tripal Content Pages!

Language: PHP - Size: 159 KB - Last synced at: 16 days ago - Pushed at: 10 months ago - Stars: 1 - Forks: 2

tripal/tripald3

provides an API for developing consistent biological diagrams with a common configuration, as well as, providing some common diagrams such as pie, bar, column and pedigree diagrams.

Language: JavaScript - Size: 1.16 MB - Last synced at: 16 days ago - Pushed at: 10 months ago - Stars: 3 - Forks: 4

UofS-Pulse-Binfo/tripal_qtl

Provides additional fields and data import which provide support for quantitative trait loci. Additionally, it integrates with Tripal Map through shared vocabulary terms and data storage models.

Language: PHP - Size: 5.8 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

UofS-Pulse-Binfo/nd_genotypes

Drupal/Tripal: Tripal interface for Chado Natural Diversity Genotypic data.

Language: PHP - Size: 6.58 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 4 - Forks: 1

UofS-Pulse-Binfo/tripal_bibtex

A BibTEX importer for Tripal Publications.

Language: PHP - Size: 5.45 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 2 - Forks: 2

tripal/tripal_jbrowse

Drupal/Tripal: Drupal integration for GMOD JBrowse instances.

Language: PHP - Size: 3.64 MB - Last synced at: 16 days ago - Pushed at: about 1 year ago - Stars: 9 - Forks: 4

isubit/tripal_jbrowse_api

A Tripal module that exposes Chado as a JBrowse-compatible REST API

Language: PHP - Size: 41 KB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 1

isubit/tripal_downloads

Provides a content type for downloadable files that can optionally be used as JBrowse tracks

Language: PHP - Size: 38.1 KB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 1

UofS-Pulse-Binfo/vcf_filter

Form interface so users can custom filter existing VCF files and export in a variety of formats.

Language: PHP - Size: 1.78 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

UofS-Pulse-Binfo/analyzedphenotypes

Tripal/Drupal support for analyzed phenotypic data including data loaders, exporters, trait pages and summaries on germplasm pages.

Language: PHP - Size: 10.9 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1

tripal/tripal_simpletest

This module can be used to develop functional tests on Tripal extensions that can be run on an existing site without disturbing its content. It's compatible with Drupal native test system.

Language: PHP - Size: 9.77 KB - Last synced at: 12 days ago - Pushed at: about 8 years ago - Stars: 1 - Forks: 0

tripal/tripal_analysis_go

This module is responsible for displaying reports from Gene Ontology (GO) analyses. This module contains a Gene Ontology Annotation Format (GAF) file loader to import GO terms assigned to features. Otherwise, GO assignments must already be loaded into the Tripal database using other data loaders (e.g. using the Tripal InterPro Analysis module or a GFF file)

Language: PHP - Size: 101 KB - Last synced at: 16 days ago - Pushed at: about 6 years ago - Stars: 1 - Forks: 5

tripal/tripal_analysis_kegg

This module extends the Tripal Analysis Module and provides a method for loading of KEGG ortholog assignments derived from the KEGG Automated Annotation Server (KAAS). The module reads the compressed .heir file or alternatively an expanded heir directory. KEGG assignments appear on each feature page, and a full KEGG report is available for browsing results once uploaded.

Language: PHP - Size: 5.55 MB - Last synced at: 16 days ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 6

tripal/fields_generator

A composer tool for easily generating Tripal Fields

Language: PHP - Size: 1.2 MB - Last synced at: 15 days ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 1

tripal/tripal_analysis_interpro

This module extends the Tripal Analysis Module and provides a method for loading XML results from the InterProScan program. The module can load InterProScan XML v4 or InterProScan XML v5 generated from the command-line or web-based versions of InterProScan. Additionally, GO terms mapped by InterProScan can optionally be assigned to features.

Language: PHP - Size: 201 KB - Last synced at: 16 days ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 5

tripal/tripal_network

Provides Tripal integration of biological networks including storage, loaders and visualzations

Language: PHP - Size: 4.51 MB - Last synced at: 12 days ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0

tripal/tripal_analysis_blast

This module extends the Tripal Analysis Module and provides a method for loading XML results from the NCBI blast program. Blast results appear on each feature page.

Language: PHP - Size: 396 KB - Last synced at: 16 days ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 6

tripal/tripal_galaxy

This module is for integration of Tripal and a remote Galaxy Instance.

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tripal/private_biodata

Make individual pages private while others of the same Tripal Content Type remain public!

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tripal/trpdownload_api

An API for implementing download functionality.

Language: PHP - Size: 66.4 KB - Last synced at: 16 days ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 4

statonlab/docker-containers

Offers 3 different flavors of docker containers that can be built upon to deploy Drupal and Tripal sites.

Language: Dockerfile - Size: 33.2 KB - Last synced at: about 1 year ago - Pushed at: about 6 years ago - Stars: 3 - Forks: 4

UofS-Pulse-Binfo/uofspb_germplasm

Drupal/Tripal: Provide support for germplasm.

Language: PHP - Size: 2.14 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

UofS-Pulse-Binfo/rawphenotypes

A Tripal module for storing raw phenotypic data. Specifically meant to help researchers contribute raw data, visualize summaries and download for further analysis.

Language: PHP - Size: 1.73 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 2

tripal/TripalTestSuite

Handle drupal bootstrapping, load environment variables, and easily wrap your tests in DB transactions.

Language: PHP - Size: 6.36 MB - Last synced at: 16 days ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 1

UofS-Pulse-Binfo/tripal_daemon 📦

Drupal/Tripal: Implements drush daemon to automatically run requested Tripal jobs.

Language: PHP - Size: 17.6 KB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 0

UofS-Pulse-Binfo/kp_nodes 📦

Drupal/Tripal: KnowPulse Node-specific themeing.

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UofS-Pulse-Binfo/cross_management 📦

Drupal:Tripal: Management of breeding program crosses integrating with Tripal Stock/Germplasm.

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UofS-Pulse-Binfo/kp_views 📦

Drupal/Tripal: KnowPulse-specific Views

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UofS-Pulse-Binfo/germ_summary 📦

Provides a matrix describing the number of germplasm (chado.stocks) per organism combination.

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tripal/t4d8

This is a temporary repository for Drupal 9 upgrade for Tripal v4. It is meant to house issues related to the upgrade.

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NAL-i5K/tripal_eutils

ncbi loader via the eutils interface

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galaxy-genome-annotation/dockerized-gmod-deployment

:whale::bar_chart::books: Galaxy + Apollo + Chado + Tripal + JBrowse + JBrowse REST API + PostGraphQL + JBrowse GraphQL Experiment all as a docker-compose.yml

Language: Python - Size: 594 KB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 5 - Forks: 9

UofS-Pulse-Binfo/genotypes_loader

A Drush-based loader for VCF files that follows the genotype storage rules outlined by ND genotypes.

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UofS-Pulse-Binfo/kptheme

The Theme for KnowPulse

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tripal/tripal_remote_job

A Tripal module, Tripal Remote Job can be used to launch jobs on external/remote servers to avoid overloading the webserver.

Language: PHP - Size: 62.5 KB - Last synced at: 12 days ago - Pushed at: over 4 years ago - Stars: 3 - Forks: 0

UofS-Pulse-Binfo/kp_frontpage

Customize the frontpage of KnowPulse.

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statonlab/tripal_manage_analyses

Language: PHP - Size: 1.12 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1

tripal/tripal_elasticsearch

Language: PHP - Size: 16.3 MB - Last synced at: 16 days ago - Pushed at: about 2 years ago - Stars: 5 - Forks: 8

statonlab/tripal_cv_xray

view entities mapped onto CVs

Language: PHP - Size: 1.6 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 1

statonlab/tripal_cmap_loader

simple cmap loader for Chado map module

Language: PHP - Size: 414 KB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

statonlab/tripal_ssr

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abretaud/tripal_rest_api

A drupal module exposing a REST API to interact with Tripal 2.x.

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tripal/mainlab_tripal

Mainlab Tripal Data Display: extending the display of a Tripal database

Size: 379 KB - Last synced at: 12 days ago - Pushed at: about 5 years ago - Stars: 2 - Forks: 1

tripal/chado_search

Mainlab Chado Search: enabling advanced search function for a Tripal/Chado database

Size: 398 KB - Last synced at: 12 days ago - Pushed at: about 5 years ago - Stars: 2 - Forks: 0

statonlab/tripal_hq

provides a user and administrative dashboard for Chado content creation

Language: PHP - Size: 8.25 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 0

UofS-Pulse-Binfo/cvitembed

Tripal module to embed CViTjs diagrams into a Tripal site.

Language: JavaScript - Size: 31.3 KB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

galaxy-genome-annotation/python-tripal

A Python library for interacting with Tripal

Language: Python - Size: 3.94 MB - Last synced at: 14 days ago - Pushed at: over 5 years ago - Stars: 3 - Forks: 2

statonlab/tripal_alchemist

entity converter for tripal 3

Language: PHP - Size: 2.29 MB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 0

statonlab/tripal_curator

Language: PHP - Size: 2.65 MB - Last synced at: about 1 year ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

UofS-Pulse-Binfo/user_charts

User-driven D3.js Charts that provide forms that allowing users to input data influencing D3.js charts.

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statonlab/tripal_dev_seed

A minified bioinformatics dataset for seeding Tripal sites

Language: Python - Size: 59.8 MB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 2

statonlab/tripaldock

Build a simple development environment for Tripal with Docker

Language: PLpgSQL - Size: 3.47 MB - Last synced at: 5 months ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0

UofS-Pulse-Binfo/generate_trpdata

Generate various types of data for testing Tripal functionality

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tripal/tripal_analysis_unigene

DEPRECATED. This module is no longer needed for Tripal v3. Only major bug fixes will be considered for Tripal v2 sites that still use it. But, in summary, This module extends the Tripal v2 Analysis Module and provides visualization of Unigenes derived from ESTs.

Language: PHP - Size: 58.6 KB - Last synced at: 12 days ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 1

statonlab/tripal_feature_jbrowse_DEPRECATED

Allows admins to specify links to JBrowse instances on feature pages by adding a pane to the left sidebar on feature pages.

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tripal/mainlab_chado_loader

Mainlab Chado Loader

Language: PHP - Size: 954 KB - Last synced at: 12 days ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 0

UofS-Pulse-Binfo/posconvert

Converts positions in a tab-delimited file (e.g. VCF) from Lc0.8 to Lc1.2

Language: PHP - Size: 10 MB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

jcvi-plant-genomics/medicago-theme

MedicagoGenome.org Theme, a Bootstrap 3 theme based on http://drupal.org/project/bootstrap.

Language: CSS - Size: 3.24 MB - Last synced at: 9 months ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0

jcvi-plant-genomics/medicago-tripal

Drupal/Tripal code for the MedicagoGenome.org site (MTGD)

Language: PHP - Size: 16.8 MB - Last synced at: 9 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0

tripal/tripal_dt

An example module released during PAG 2017 hackathon, that displays a D3JS tree from the phylonode table.

Language: JavaScript - Size: 61.5 KB - Last synced at: 12 days ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0