Issues

• Scatterplot: select the columns based on colnames rather than position in the table

  galaxyproject/tools-devteam#632 · Filter by author KristinaGomoryova opened on Jan 23, 2025
  1

• RPY package dependency issue with kcca1 1.0.0

  bug
  galaxyproject/tools-devteam#626 · Filter by author jennaj opened on Aug 9, 2024

• Test against 22.01

  galaxyproject/tools-devteam#602 · Filter by author mvdbeek opened on Feb 4, 2022
  2

• Unused tool parameters

  galaxyproject/tools-devteam#601 · Filter by author bernt-matthias opened on Jan 24, 2022
  1

• Fix gifs in Get flanks tool description

  galaxyproject/tools-devteam#597 · Filter by author millen2223 opened on Oct 28, 2021
  4

• Cuffdiff 2.2.1.5 SQLite option results in job failures

  deprecated
  galaxyproject/tools-devteam#509 · Filter by author jennaj opened on Jul 19, 2018
  9

  

• Enhancement: Upgrade Fastq interlacer 1.2.0 and de-interlacer 1.1.1 to work with Illumina 1.8+ identifiers

  galaxyproject/tools-devteam#488 · Filter by author jennaj opened on Oct 3, 2017

• gi2taxonomy seems outdated

  galaxyproject/tools-devteam#483 · Filter by author bernt-matthias opened on Aug 28, 2017
  3

• Annovar v0.2 is problematic and needs a correction.

  bug
  galaxyproject/tools-devteam#480 · Filter by author jennaj opened on Jul 25, 2017

• fastq_paired_end_joiner does not work with read 3 or read 4 from Illumina

  bugenhancement
  galaxyproject/tools-devteam#479 · Filter by author lparsons opened on Jul 25, 2017

• Unsorted BAM output for bwa mem?

  galaxyproject/tools-devteam#478 · Filter by author dpryan79 opened on Jul 25, 2017
  2

• Adding MiniKrakenDB and SILVA to Kraken Data manager?

  galaxyproject/tools-devteam#443 · Filter by author vebaev opened on Jan 25, 2017
  1

• Bamtools Filter BAM triggers a combined job instead of distinct jobs with version 2

  bug
  galaxyproject/tools-devteam#440 · Filter by author jennaj opened on Jan 17, 2017

• Enhance/normalize "Picard Normalize Fasta" default settings and better link-in custom genome formatting

  enhancement
  galaxyproject/tools-devteam#433 · Filter by author jennaj opened on Jan 14, 2017

• Picard FixMateInformation does not launch individual jobs when multiple datasets are selected

  bug
  galaxyproject/tools-devteam#421 · Filter by author jennaj opened on Dec 14, 2016

• GitHub and ToolShed are out of sync

  galaxyproject/tools-devteam#416 · Filter by author blankenberg opened on Nov 22, 2016
  2

• Consistency with Rpy 1 and NumPy packages and tools, e.g. linear_regression

  bug
  galaxyproject/tools-devteam#415 · Filter by author blankenberg opened on Nov 22, 2016
  4

• list of high profile tools to move to IUC

  galaxyproject/tools-devteam#406 · Filter by author martenson opened on Oct 29, 2016
  5

  

• Update SICER to include more genome builds (ideally all on the instance)

  enhancementsoftware update
  galaxyproject/tools-devteam#390 · Filter by author jennaj opened on Sep 14, 2016
  2

• Rsync with G2 search function no longer functioning on latest build

  galaxyproject/tools-devteam#387 · Filter by author djevo1 opened on Sep 2, 2016

• How to access a genome fasta index (FAI) build with data_manager_sam_fasta_index_builder (qustion also on biostars)

  galaxyproject/tools-devteam#362 · Filter by author chrausch opened on Mar 31, 2016
  2

• Clean up cuffdiff (maybe others) collection hacks.

  galaxyproject/tools-devteam#342 · Filter by author jmchilton opened on Mar 2, 2016
  

• cummeRbund 1.0.1 error - plots fail against sqlite database content

  bugwip
  galaxyproject/tools-devteam#340 · Filter by author methylome opened on Feb 24, 2016
  9

  

• Add option for "BAMTools Convert, Merge, Randomize" to process a collection as a group

  galaxyproject/tools-devteam#339 · Filter by author jennaj opened on Feb 24, 2016

• BAMtools "Convert, Merge, Randomize" - "Random" option requires sorted input

  galaxyproject/tools-devteam#338 · Filter by author jennaj opened on Feb 24, 2016