Topics tagged tool-help

Topic	Replies	Views	Activity
Bakta output option for a GenBank file is tabular only, not gbff. usegalaxy.org support annotation , tool-help , bakta	1	2	July 26, 2025
Newick tree with study sequences placed amongst reference sequences tool-help , picrust2_pipeline , picrust2_add_descriptions , picrust2_hsp , picrust2_metagenome_pipeline , picrust2_pathway_pipeline , picrust2_place_seqs , picrust2_shuffle_predictions	1	5	July 25, 2025
NCBI Datasets Genomes tool-help , datasets_download_genome	1	4	July 25, 2025
Group Tool, with no operation values available usegalaxy.org support tool-help , grouping1	1	3	July 25, 2025
Pcoa. phylip-formatted distance matrix metagenomics , tool-help , mothur_dist_shared , mothur_pcoa	3	5	July 23, 2025
Output of heatmap2 tool on Galaxy transcriptomics , tool-help , ggplot2_heatmap2	2	9	July 23, 2025
Concatenate multiple datasets tool; combining all fastq.gz files under a single barcode to one fastq.gz file collections , tool-help	6	115	July 22, 2025
Annotate DESeq2/DEXSeq output table error usegalaxy.org support tool-help , deg_annotate	9	27	July 22, 2025
Trinotate SQLite boilerplate unavailable on usegalaxy.eu? usegalaxy.eu support troubleshooting , tool-help , trinotate	3	21	July 22, 2025
On obtaining current eggNOG data usegalaxy.eu support tool-help , trinotate	1	8	July 22, 2025
JSON element in SearchGui? usegalaxy.org support tool-help	1	4	July 22, 2025
Error in Processing data usegalaxy.eu support tool-help , lotus2	2	12	July 22, 2025
QIIME2 version 2025.04 not working usegalaxy.org support tool-install , tool-help	1	6	July 21, 2025
CREx_rearrangement scenario tool-help , revoluzer_crex	3	12	July 18, 2025
Getting sequence type nomenclature by CGMLST tool-help , chewbbaca_downloadschema , chewbbaca_createschema , chewbbaca_allelecall , chewbbaca_extractcgmlst , chewbbaca_joinprofiles , chewbbaca_nsstats , chewbbaca_prepexternalschema , chewbbaca_allelecallevaluator	1	8	July 18, 2025
BRAKER3 permission issue usegalaxy.eu support tool-help , braker3	9	43	July 18, 2025
Reference genome not loading in RNA Star usegalaxy.org support troubleshooting , tool-help	2	11	July 17, 2025
Manta turn off depth option does not seem to work properly usegalaxy.eu support tool-dev , tool-help	5	16	July 14, 2025
trimAl_use_inputfiel usegalaxy.eu support tool-help , trimal	1	15	July 14, 2025
Interactive BlobToolKit server-open-issue , tool-help , blobtoolkit , interactive_tool_blobtoolkit	4	17	July 14, 2025
Converting command line awk to Galaxy tool-help , tp_awk_tool	1	360	July 13, 2025
No dataset pair dataset collections with fastqsanger or fastqsanger.gz elements available tool-help , fastp	1	3	July 11, 2025
Scanpy FindVariableGenes tool-help , scanpy_find_variable_genes	1	19	July 11, 2025
BiG-SCAPE issue usegalaxy.eu support tool-help , bigscape	1	6	July 11, 2025
Locale error when running tools usegalaxy.org support troubleshooting , tool-help	5	34	July 10, 2025
cut and run: MACS2 error usegalaxy.eu support macs2 , epigenetics , resources , tool-help	6	25	July 9, 2025
Apollo Create or Update Organism error usegalaxy.eu support server-open-issue , tool-help , apollo	4	41	July 8, 2025
Apollo Create Organism Naming Conflict Error usegalaxy.eu support tool-help , apollo	2	5	July 8, 2025
Duration for running Pavian in Galaxy usegalaxy.eu support tool-help , interactive_tool_pavian	4	11	July 2, 2025
PhageTerm Error usegalaxy.eu support troubleshooting , tool-help	1	7	July 1, 2025

Bakta output option for a GenBank file is tabular only, not gbff.

usegalaxy.org support

annotation , tool-help , bakta

1

2

July 26, 2025

Newick tree with study sequences placed amongst reference sequences

tool-help , picrust2_pipeline , picrust2_add_descriptions , picrust2_hsp , picrust2_metagenome_pipeline , picrust2_pathway_pipeline , picrust2_place_seqs , picrust2_shuffle_predictions

1

5

July 25, 2025

NCBI Datasets Genomes

tool-help , datasets_download_genome

1

4

July 25, 2025

Group Tool, with no operation values available

usegalaxy.org support

tool-help , grouping1

1

3

July 25, 2025

Pcoa. phylip-formatted distance matrix

metagenomics , tool-help , mothur_dist_shared , mothur_pcoa

3

5

July 23, 2025

Output of heatmap2 tool on Galaxy

transcriptomics , tool-help , ggplot2_heatmap2

2

9

July 23, 2025

Concatenate multiple datasets tool; combining all fastq.gz files under a single barcode to one fastq.gz file

collections , tool-help

6

115

July 22, 2025

Annotate DESeq2/DEXSeq output table error

usegalaxy.org support

tool-help , deg_annotate

9

27

July 22, 2025

Trinotate SQLite boilerplate unavailable on usegalaxy.eu?

usegalaxy.eu support

troubleshooting , tool-help , trinotate

3

21

July 22, 2025

On obtaining current eggNOG data

usegalaxy.eu support

tool-help , trinotate

1

8

July 22, 2025

JSON element in SearchGui?

usegalaxy.org support

tool-help

1

4

July 22, 2025

Error in Processing data

usegalaxy.eu support

tool-help , lotus2

2

12

July 22, 2025

QIIME2 version 2025.04 not working

usegalaxy.org support

tool-install , tool-help

1

6

July 21, 2025

CREx_rearrangement scenario

tool-help , revoluzer_crex

3

12

July 18, 2025

Getting sequence type nomenclature by CGMLST

tool-help , chewbbaca_downloadschema , chewbbaca_createschema , chewbbaca_allelecall , chewbbaca_extractcgmlst , chewbbaca_joinprofiles , chewbbaca_nsstats , chewbbaca_prepexternalschema , chewbbaca_allelecallevaluator