bgruening/galaxytools

Issues

• Autoupdate errors

  #1511 opened 3 months ago by gxydevbot
  12

• Update 'join' tool to also accept parquet (and hdf5?)

  #1548 opened a month ago by hechth
  0

• Add fix_overlapping_genes option to AGAT tool

  #1527 opened 2 months ago by SaimMomin12
  0

• Autoupdate errors

  #1510 opened 3 months ago by gxydevbot
  0

• Autoupdate errors

  #1509 opened 3 months ago by gxydevbot
  0

• split_file_to_collection hardcodes fastq output

  #1490 opened 4 months ago by mvdbeek
  0

• tp_cut fails if cut by field is selected and a delimiter is provided

  #1480 opened 4 months ago by mvdbeek
  2

• aragorn_out_to_gff3.py error when parsing genomes with tmRNA's

  #1482 opened 4 months ago by cdshaffer
  0

• cannot find 'reference_genome' in toolshed.g2.bx.psu.edu/repos/bgruening/hicup_digester/hicup_digester/0.9.2+galaxy0

  #1478 opened 4 months ago by mvdbeek
  0

• agat - should the output be GFF3?

  #1471 opened 5 months ago by TomHarrop
  1

• Update text-processing/replace_text_in_column examples

  #1466 opened 5 months ago by GomeChas
  0

• CPAT tool options

  #1458 opened 5 months ago by SaimMomin12
  1

• imagej2 enhance contrasts fails

  #1452 opened 5 months ago by bernt-matthias
  5

• Blobtoolkit can have trouble parsing raw Diamond results

  #1456 opened 5 months ago by jennaj
  0

• MitoHiFi defaulting to animal data

  #1454 opened 5 months ago by Hymenium
  1

• `Split file` doesn't include header in last dataset when called on rows

  #1424 opened 7 months ago by hechth
  3

• Viz plugin requiring multiple datasets as input

  #1414 opened 9 months ago by GuilhemSempere
  0

• New version of grep fails if pattern isn't found

  #1412 opened 9 months ago by Delphine-L
  1

• cut tool improvements

  #1288 opened 10 months ago by bernt-matthias
  1

• Genbank file is not optional

  #1389 opened 10 months ago by mthang
  4

• Many tools specify `format="text"` as data inputs or outputs

  #1387 opened 10 months ago by mvdbeek
  0

• Integration of a few BioModels (ML models)

  #1365 opened a year ago by anuprulez
  0

• agat_sp_keep_longest_isoform.pl needed

  #1370 opened a year ago by bgruening
  0

• Split file to collection to tool fails with >1024 files

  #1294 opened a year ago by simonbray
  8

• Update or replace link in help section of tp_awk_tool

  #1321 opened a year ago by jennaj
  1

• Unused tool parameters

  #1185 opened 3 years ago by bernt-matthias
  0

• Salmon doesn't work correctly with paired-end reads

  #1260 opened 2 years ago by gallardoalba
  0

• add repeat elements to tp_find_and_replace

  #1227 opened 2 years ago by pvanheus
  3

• Add more information to the help section.

  #1236 opened 2 years ago by mthang
  1

• Format of Search CV parameters

  #1231 opened 2 years ago by anuprulez
  12

• Chemfp not found

  #1215 opened 3 years ago by mthang
  0

• License

  #1210 opened 3 years ago by simonbray
  1

• Missing PAF file format for the overlaps in the wrapper

  #1196 opened 3 years ago by mthang
  4

• Compound conversion: Add index to output

  #1189 opened 3 years ago by hechth
  12

• fgrep (grep -F) option

  #1184 opened 3 years ago by eschen42
  1

• fly improvement

  #1145 opened 3 years ago by bgruening
  0

• Add dpocket tool

  #1123 opened 3 years ago by simonbray
  0

• Additional files for Canu output

  #1156 opened 3 years ago by TT1972
  0

• Installing timeout

  #1124 opened 3 years ago by menegidio-lab
  7

• How to install the sortmerna databases using the data manager?

  #1146 opened 3 years ago by hepcat72
  0

• Flye versions > 2.6 are listed in the toolshed as not installable.

  #1117 opened 3 years ago by Slugger70
  0

• Failure running my ML workflows

  #1115 opened 4 years ago by kxk302
  22

• question about my first galaxy tool

  #1112 opened 4 years ago by ZeroDesigner
  5

• Galaxy is not recognizing sklearn input 'zip' files

  #1113 opened 4 years ago by cat-bro
  0

• uniprot_rest_interface doesn't fail if the service is unavailable.

  #1111 opened 4 years ago by gmauro
  0

• Fix get_scoring method

  #1103 opened 4 years ago by kxk302
  0

• Fix failing lightgbm test

  #1102 opened 4 years ago by kxk302
  0

• where can I find openduck requirements?

  #1101 opened 4 years ago by martenson
  3

• Enhancement: Have the tool "Split file to collection" inherit the input datatype

  #1099 opened 4 years ago by jennaj
  1

• Add one hot encoding (OHE) utility to ML workbench

  #1093 opened 4 years ago by kxk302
  0