WormBase/caltech-curation-services

Modular curation services for Caltech WormBase data

Language: Perl - Size: 9.97 MB - Last synced: 3 days ago - Pushed: 4 days ago - Stars: 1 - Forks: 0

WormBase/wormbase-pipeline

Wormbase Build Pipeline

Language: Perl - Size: 34 MB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 22 - Forks: 13

WormBase/website-jbrowse-protein

Dockerfile for building protein schematic

Language: Shell - Size: 48.8 KB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 0 - Forks: 0

WormBase/website-jbrowse-gff

Dockerfile for processing GFF data for JBrowse

Language: Shell - Size: 43.9 KB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 0 - Forks: 0

WormBase/ACKnowledge

Author Curation to Knowledgebases

Language: JavaScript - Size: 2.41 MB - Last synced: 12 days ago - Pushed: 13 days ago - Stars: 1 - Forks: 1

WormBase/website-genome-browsers

Language: Perl - Size: 19.4 MB - Last synced: 15 days ago - Pushed: 15 days ago - Stars: 1 - Forks: 0

WormBase/genomic-info-from-papers Fork of rishabgit/genomic-info-from-papers

Extract genomic data from papers. Made during GSoC 21 for @wormbase

Language: HTML - Size: 45.6 MB - Last synced: 20 days ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 1

WormBase/curation-sentence-classification

Language: Jupyter Notebook - Size: 11.3 MB - Last synced: 29 days ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

WormBase/amplify-wb-jbrowse2

An AWS Amplify oriented repo for building WormBase's JBrowse 2

Language: JavaScript - Size: 165 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

WormBase/jbplugin-screenshot Fork of bhofmei/jbplugin-screenshot

JBrowse plugin that adds button which uses phantomJS to take browser screenshot

Language: JavaScript - Size: 6.44 MB - Last synced: about 2 months ago - Pushed: over 4 years ago - Stars: 0 - Forks: 0

WormBase/amplify-wb-protein-schematic

Repo to drive AWS Amplify builds for the protein browser

Size: 18.9 MB - Last synced: about 2 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

WormBase/wormbase_rest

This is an API to the datomic database and provides data to catalyst on a per widget basis as well as information for tools like blast.

Language: Clojure - Size: 83.3 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 7 - Forks: 2

WormBase/names

Names and identifiers service for facilitating collaboration between curation databases

Language: Clojure - Size: 4.03 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 1

WormBase/entity-extraction-antibody

Language: Python - Size: 25.4 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

WormBase/amplify-wb-prot-schematic

Repo to drive AWS Amplify builds for the protein browser

Language: JavaScript - Size: 26.5 MB - Last synced: about 2 months ago - Pushed: 2 months ago - Stars: 0 - Forks: 0

WormBase/amplify-wb-jbrowse1

Repo to drive AWS Amplify builds for JBrowse 1

Language: JavaScript - Size: 16.3 MB - Last synced: about 2 months ago - Pushed: 2 months ago - Stars: 0 - Forks: 0

WormBase/wbtools

Interface to WB curation data, with corpus management and NLP functions

Language: Python - Size: 614 KB - Last synced: about 1 month ago - Pushed: 2 months ago - Stars: 2 - Forks: 0

WormBase/textpresso

Repository for TextPressoCentral

Size: 0 Bytes - Last synced: 8 months ago - Pushed: almost 10 years ago - Stars: 1 - Forks: 0

WormBase/acedb Fork of richarddurbin/acedb

the Sanger Institute version of the venerable genome database system

Language: C - Size: 7.11 MB - Last synced: 8 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 1

WormBase/entity-extraction-email-addresses

Language: Python - Size: 10.7 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 0 - Forks: 0

WormBase/variant-first-pass

Variant First Pass Pipeline

Language: Python - Size: 35.2 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 0 - Forks: 0

WormBase/entity-extraction-expression-cluster

Language: Python - Size: 5.86 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 0 - Forks: 0

WormBase/gc-anatomy-function

Graphical curation tool for anatomy function

Language: Python - Size: 95.7 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 0 - Forks: 0

WormBase/wormcells-viz

Visualization tools for C. elegans single cell RNA sequencing data

Language: JavaScript - Size: 504 KB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 2 - Forks: 0

WormBase/hydraconference_2023

Course material for WormBase ParaSite's workshop at The Hydra Helminth Conference that took place in Hydra, Greece (September 2022).

Size: 11.9 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

WormBase/caltech-curation

Language: Perl - Size: 1.95 KB - Last synced: 10 months ago - Pushed: about 8 years ago - Stars: 1 - Forks: 0

WormBase/automated_descriptions_variations

Size: 0 Bytes - Last synced: about 1 year ago - Pushed: over 8 years ago - Stars: 0 - Forks: 0

WormBase/website-classic

The original version of the WormBase website.

Language: Perl - Size: 51.6 MB - Last synced: about 1 year ago - Pushed: about 12 years ago - Stars: 4 - Forks: 1

WormBase/website-intermine-sources-DEPRECATED

The Intermine instance at WormBase

Language: Java - Size: 140 MB - Last synced: about 1 year ago - Pushed: over 12 years ago - Stars: 3 - Forks: 1

WormBase/GBrowse Fork of GMOD/GBrowse

the Generic Genome Browser

Language: Perl - Size: 23.8 MB - Last synced: about 1 year ago - Pushed: almost 13 years ago - Stars: 1 - Forks: 1

WormBase/website-gbrowse2-support

Configuration and miscellaneous support files for our GBrowse2 installation

Language: Perl - Size: 398 MB - Last synced: about 1 year ago - Pushed: over 12 years ago - Stars: 1 - Forks: 0

WormBase/genedesc_generator

Automated gene descriptions generator for model organism databases

Language: Python - Size: 8.46 MB - Last synced: about 1 year ago - Pushed: almost 5 years ago - Stars: 1 - Forks: 0

WormBase/scdefg

A single page Flask app with a GUI for performing differential expression with scvi-tools. Returns a volcano plot and downloadable tables with DE results.

Language: Python - Size: 133 KB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 3 - Forks: 1

WormBase/wormmine_testing

Small web app that automatically tests releases

Language: Python - Size: 43.9 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 1 - Forks: 0

WormBase/xvi_iss_2022

Course material for WormBase ParaSite's course at the XVI International Symposium on Schistosomiasis that took place in Ouro Preto, Brazil (November 2022).

Size: 13 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 1 - Forks: 0

WormBase/tpc-monitors

Monitor Textpresso Pipelines and Services with Prometheus and Grafana

Language: Dockerfile - Size: 6.84 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

WormBase/TableExtractionFromPDF

Extacting tables from PDFs using AWS textract

Language: Python - Size: 12.7 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 1 - Forks: 0

WormBase/website-intermine

Language: HTML - Size: 24.7 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 2 - Forks: 1

WormBase/wormicloud

Interaction data analysis with word clouds

Language: JavaScript - Size: 1.42 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 2 - Forks: 0

WormBase/metrics_page_prototype

Language: Python - Size: 598 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

WormBase/docker-intermine-gradle-wormmine Fork of intermine/docker-intermine-gradle

Docker for InterMine

Language: Shell - Size: 112 KB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

WormBase/wbps-expression

Transcriptomic data for WormBase ParaSite

Language: Perl - Size: 7.23 MB - Last synced: 25 days ago - Pushed: 5 months ago - Stars: 3 - Forks: 2

WormBase/pseudoace

Modelling the WormBase ACeDB database in datomic.

Language: Clojure - Size: 82.3 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 4 - Forks: 3

WormBase/AcePerl

Ace.pm - Perl interface to ACEDB databases

Language: Perl - Size: 894 KB - Last synced: 7 months ago - Pushed: over 12 years ago - Stars: 3 - Forks: 2

WormBase/wormmine-bio-sources

Language: Java - Size: 75 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 1 - Forks: 0

WormBase/SObA

Graph Summary of Ontology-based Annotation

Language: Perl - Size: 355 KB - Last synced: about 2 months ago - Pushed: about 2 years ago - Stars: 1 - Forks: 0

WormBase/wormbase-architecture

Language: Python - Size: 71.5 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 3 - Forks: 0

WormBase/db-migration

Datomic build of the ACeDB database on AWS

Language: Python - Size: 2.15 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 1

WormBase/wb-search

Language: Clojure - Size: 423 KB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 1

WormBase/wb-cache-warmer

Pre-caching for slow API endpoints

Language: Clojure - Size: 52.7 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

WormBase/graphical-curation

Graphical curation tool interface

Language: JavaScript - Size: 2.92 MB - Last synced: 1 day ago - Pushed: over 2 years ago - Stars: 0 - Forks: 1

WormBase/gsoc-2021-bioinformatics-notebooks

Language: Jupyter Notebook - Size: 1.69 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

WormBase/single-cell

Size: 2.93 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 0 - Forks: 1

WormBase/anndata-wrangling

This repository describes how WormBase anndata files (.h5ad) for single cell RNA sequencing data should be wrangled

Size: 13.7 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

WormBase/parasite-workshops

Materials for WormBase ParaSite workshops

Size: 2.34 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 1 - Forks: 0

WormBase/wormcells-notebooks

This repository collects all the notebooks and scripts used to wrangling C. elegans scRNAseq data and processing it with scvi-tools for the wormcells-viz and scdefg app

Language: Jupyter Notebook - Size: 971 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

WormBase/textpresso_classifiers

Textpresso Document Classifier library and scripts

Language: Python - Size: 9.16 MB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 3 - Forks: 0

WormBase/website-public

WormBase webiste source code public mirror

Language: HTML - Size: 192 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 3 - Forks: 11

WormBase/wb_file_generator

This file will be mainly used to generate files for populating WormMine

Language: Clojure - Size: 10.7 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 1

WormBase/caltech-tools

Misc scripts and forms contributed by WormBase-Caltech.

Language: Perl - Size: 99.6 KB - Last synced: about 2 months ago - Pushed: over 4 years ago - Stars: 0 - Forks: 1

WormBase/website-mobile

Mobile version of the WormBase website

Language: CSS - Size: 1.08 MB - Last synced: about 1 year ago - Pushed: almost 9 years ago - Stars: 4 - Forks: 3

WormBase/db-prototypes

Prototypes for the database migration project at WormBase.

Language: HTML - Size: 81.6 MB - Last synced: about 1 year ago - Pushed: over 8 years ago - Stars: 3 - Forks: 1

WormBase/create-react-app-for-catalyst Fork of facebook/create-react-app

Create React apps with no build configuration.

Language: JavaScript - Size: 4.91 MB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0

WormBase/wormmine_help

Language: CSS - Size: 47.4 MB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 1 - Forks: 0

WormBase/bluegenes Fork of intermine/bluegenes

A friendly next-generation interface for Genomic data discovery powered by InterMine

Language: Clojure - Size: 1.91 MB - Last synced: about 1 year ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

WormBase/ideas-list

Ideas List for WomBase GSoC 2018

Size: 21.5 KB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 1 - Forks: 0

WormBase/wormbase-curation

Scripts and documentation related to WormBase curation efforts

Language: Perl - Size: 1.11 MB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 4 - Forks: 1

WormBase/website-biomart

The BioMart instance at WormBase

Language: Perl - Size: 6.45 MB - Last synced: about 1 year ago - Pushed: almost 13 years ago - Stars: 1 - Forks: 0

WormBase/down

Query and exploration web services for the WormBase datomic database

Language: Clojure - Size: 5.98 MB - Last synced: about 1 year ago - Pushed: about 7 years ago - Stars: 0 - Forks: 0

WormBase/dev-config

Developer configuration files for WormBase devs

Language: Makefile - Size: 1000 Bytes - Last synced: about 1 year ago - Pushed: over 7 years ago - Stars: 0 - Forks: 0

WormBase/intermine Fork of intermine/intermine

A powerful open source data warehouse system

Language: Java - Size: 726 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 4 - Forks: 0

WormBase/acetyl Fork of dasmoth/acetyl

ACeDB clojure library - parsing and dumping .ace formatted files

Language: Clojure - Size: 15.6 KB - Last synced: 7 months ago - Pushed: about 8 years ago - Stars: 0 - Forks: 0

WormBase/automated_descriptions

automated concise descriptions

Language: Perl - Size: 136 KB - Last synced: about 1 year ago - Pushed: about 8 years ago - Stars: 1 - Forks: 0

WormBase/namedb

The namedb server.

Language: Clojure - Size: 348 KB - Last synced: about 1 year ago - Pushed: about 9 years ago - Stars: 0 - Forks: 0

WormBase/website-datomic

Size: 0 Bytes - Last synced: about 1 year ago - Pushed: about 9 years ago - Stars: 0 - Forks: 0

WormBase/AceCouch Fork of aduong/AceCouch

AcePerl API for AceDB data store in CouchDB

Language: Perl - Size: 160 KB - Last synced: about 1 year ago - Pushed: over 11 years ago - Stars: 1 - Forks: 2

WormBase/ace2couch Fork of aduong/ace2couch

Moving from AceDB to CouchDB

Language: Perl - Size: 135 KB - Last synced: about 1 year ago - Pushed: over 11 years ago - Stars: 1 - Forks: 1

WormBase/mimosa Fork of GMOD/mimosa

Miniature Model Organism Sequence Aligner

Language: CSS - Size: 1.49 MB - Last synced: about 1 year ago - Pushed: over 12 years ago - Stars: 1 - Forks: 0

WormBase/ky-projects

Karen's GSA and curation scripts

Language: Perl - Size: 89.8 KB - Last synced: about 1 year ago - Pushed: over 13 years ago - Stars: 1 - Forks: 0

WormBase/cookbooks-db-migration

Language: Ruby - Size: 148 KB - Last synced: about 1 year ago - Pushed: almost 10 years ago - Stars: 0 - Forks: 0

WormBase/Literature-Annotation-Tool

Size: 109 KB - Last synced: about 1 year ago - Pushed: over 11 years ago - Stars: 0 - Forks: 0

WormBase/website-intermine-master-DEPRECATED

Master configuration and model files for Intermine at WormBase

Language: Java - Size: 2.68 MB - Last synced: about 1 year ago - Pushed: about 12 years ago - Stars: 2 - Forks: 0