NAL-i5K

Repositories

• Apollo

  Forked from GMOD/Apollo

  Customized version of Apollo, which is a genome annotation editor with a Java Server backend and a Javascript client that runs in a web browser as a JBrowse plugin.
  Groovy 72 1 0 0 Updated Mar 2, 2021

• GFF3toolkit

  Python programs for processing GFF3 files

  bioinformatics gff3 gff gff3-format
  Python 17 37 5 1 Updated Mar 2, 2021

• ColorByType

  A JBrowse plugin to color the features according the feature type
  JavaScript 1 0 1 0 Updated Mar 1, 2021

• jbrowse

  Customized version of jbrowse used for NAL-i5k
  JavaScript LGPL-2.1 0 0 0 17 Updated Mar 1, 2021

• general_issues

  for issues and discussions not tied to a specific repository
  0 1 69 0 Updated Feb 19, 2021

• Organism_Onboarding

  A workflow to make organism onboarding pipeline easy to handle as an I/O pipeline

  pipeline cwl
  Common Workflow Language 1 2 4 1 Updated Feb 19, 2021

• NAL_RNA_seq_annotation_pipeline
  Python 1 2 12 2 Updated Feb 12, 2021

• content_onboarding_scripts

  Ancillary scripts for onboarding content at the i5k Workspace.
  Python 0 0 1 0 Updated Feb 12, 2021

• NAL_CSS

  Custom css for the i5k workspace track styles.
  CSS 1 0 0 1 Updated Feb 10, 2021

• genomics-workspace

  Django website project for common sequence search tools.

  django bioinformatics genomics django-application blast sequence-alignment ncbi-blast
  JavaScript 5 11 22 (2 issues need help) 6 Updated Feb 10, 2021

• tripal_eutils

  ncbi loader via the eutils interface

  ncbi tripal tripal3 tripal3-compatible eutils ncbi-assembly ncbi-biosamples
  PHP GPL-3.0 3 3 23 2 Updated Feb 9, 2021

• jbrowse_track_configs

  This is a repository to collect our JBrowse and Apollo track configuration files.

  hacktoberfest hacktoberfest2020
  Shell 1 0 1 0 Updated Jan 21, 2021

• wiggle-tools

  Forked from chienyuehlee/wiggle-tools
  Python 1 0 0 0 Updated Jan 7, 2021

• bam_to_bigwig

  Forked from hotdogee/bam_to_bigwig

  Convert your alignment files in BAM format into coverage files in bigWig format
  Python 1 0 0 1 Updated Jan 7, 2021

• t3_species_glossary

  Creates a view to display a glossary of all Tripal 3 organism
  PHP 0 0 1 0 Updated Dec 18, 2020

• T2-to-T3-Upgrade-Guide
  PHP 0 0 3 0 Updated Nov 25, 2020

• gene_jbrowse_field

  Create JBrowse field on Tripal 3 Gene Pages
  PHP 0 0 3 0 Updated Aug 27, 2020

• tripal_tests

  selenium robot-framework robotframework selenium-python
  Python 0 0 1 1 Updated Aug 6, 2020

• coordinates_conversion

  Conversion programs that use the output from fasta_diff.py to convert coordinates and IDs in different format files.
  Python 2 1 0 0 Updated Jun 17, 2020

• remap-gff3

  update gff3 coordinates to new assembly versions
  Python 3 4 2 0 Updated Mar 13, 2020

• genomics-VM

  Setup your development environment for genomics applications easily by setting up a Virtualbox VM through Vagrant.

  vagrant virtualbox genomics virtual-machine
  1 1 14 1 Updated Oct 28, 2019

• genomics-workspace_docker
  0 0 0 0 Updated Jul 23, 2019

• tripal3_organism_layout

  a drupal fields module for organism display for i5k
  PHP 0 0 3 0 Updated Apr 9, 2019

• github_stat

  Generate statistics report (commit/insertion/deletion) of your github repos
  Python 1 0 0 0 Updated Apr 1, 2019

• i5k_analysis

  drupal Features module for analysis bundle
  PHP 0 0 0 0 Updated Mar 11, 2019

• tripal_apollo

  Provides a Drupal interface for linking and managing users for Apollo
  PHP GPL-3.0 0 0 10 0 Updated Jan 8, 2019

• notes

  learning notes from i5k-workspace
  0 0 0 0 Updated Dec 13, 2018

• NAL-genomics-workspace

  NAL specific customizations to the genomics workspace application
  JavaScript 0 1 1 2 Updated Dec 11, 2018

• tripal_chado_datasets

  Provides an admin layer and forms for users to submit organisms and analysis into Chado
  PHP 0 0 12 0 Updated Nov 19, 2018

• AnnotHelper
  JavaScript 0 0 0 0 Updated Oct 4, 2018