Galaxy Community Help

Topic	Replies	Views	Activity
Incomplete annotation with maker usegalaxy.org support fasta-manipulation , genome-annotation	5	96	July 22, 2025
LotuS2 run is failing with my input data usegalaxy.eu support gtn-tutorial , tool-help , lotus2	2	66	July 22, 2025
activate idr/omero connection credentials menu locally devops-administration , galaxy-local , toolshed	7	144	July 22, 2025
Classify Contigs to reference sequences usegalaxy.org support	7	139	July 21, 2025
how to perfom Samtools view tagged.bam \| grep -c “miRNAname” >> genome-basedcounts.tsv usegalaxy.eu support filter-bam	3	67	July 21, 2025
QIIME2 version 2025.04 not working usegalaxy.org support tool-install , tool-help	1	64	July 21, 2025
GATK4 Mutect2 Syntax Error usegalaxy.org support gatk4	5	111	July 21, 2025
Metagenomic workflow gtn-tutorial , microgalaxy	4	106	July 21, 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	63	July 18, 2025
Downloading SnpEff database into history: Create database instead! Resources resources , snpeff	3	229	July 18, 2025
BRAKER3 permission issue usegalaxy.eu support tool-help , braker3 , genemark	9	200	July 18, 2025
Reference genome not loading in RNA Star usegalaxy.org support troubleshooting , tool-help	2	75	July 17, 2025
Correcting errors with NCBI FCS GX Foreign Contamination Screening assembled genomes Resources gtn-tutorial , workflow , resources , tool-help , ncbi_fcs_gx	1	163	July 17, 2025
Halla keeps failing even with documents that previously worked galaxy-biobakery	4	59	July 17, 2025
Peptide Shaker Job Failure usegalaxy.org support proteomics	2	49	July 16, 2025
HUMAnN/MetaPhlAn error usegalaxy.eu support troubleshooting , microgalaxy , humann	3	265	July 15, 2025
🔧 gunicorn.sock not created despite Galaxy running — and dependency_resolvers_conf.xml missing devops-administration	11	173	July 15, 2025
pulsar does not stage blastdb in Galaxy History for NCBI blastn run devops-administration	3	92	July 14, 2025
Galaxy 25_0 on GCE, Microarray Tissue Analysis tutorial, ImageJ installation devops-administration , iwc-workflows	15	141	July 14, 2025
Manta turn off depth option does not seem to work properly usegalaxy.eu support development-tools , tool-help	5	55	July 14, 2025
More memory than allocated error - diffbind usegalaxy.org support diffbind	4	103	July 14, 2025
trimAl_use_inputfiel usegalaxy.eu support tool-help , trimal , maf-manipulations	1	55	July 14, 2025
Interactive BlobToolKit server-open-issue , tool-help , blobtoolkit , interactive_tool_blobtoolkit	4	118	July 14, 2025
Data not purging storage-dashboard	1	37	July 14, 2025
Converting command line awk to Galaxy tool-help , tp_awk_tool	1	394	July 13, 2025
Problems downloading some collections from .eu usegalaxy.eu support download	5	124	July 12, 2025
No dataset pair dataset collections with fastqsanger or fastqsanger.gz elements available tool-help , fastp	1	94	July 11, 2025
GeNomad database usegalaxy.org support reference-index	7	126	July 11, 2025
Scanpy FindVariableGenes tool-help , scanpy_find_variable_genes	1	49	July 11, 2025
BiG-SCAPE issue usegalaxy.eu support tool-help , bigscape	1	41	July 11, 2025

Incomplete annotation with maker

usegalaxy.org support

fasta-manipulation , genome-annotation

5

96

July 22, 2025

LotuS2 run is failing with my input data

usegalaxy.eu support

gtn-tutorial , tool-help , lotus2

2

66

July 22, 2025

activate idr/omero connection credentials menu locally

devops-administration , galaxy-local , toolshed

7

144

July 22, 2025

Classify Contigs to reference sequences

usegalaxy.org support

7

139

July 21, 2025

how to perfom Samtools view tagged.bam | grep -c “miRNAname” >> genome-basedcounts.tsv

usegalaxy.eu support

filter-bam

3

67

July 21, 2025

QIIME2 version 2025.04 not working

usegalaxy.org support

tool-install , tool-help

1

64

July 21, 2025

GATK4 Mutect2 Syntax Error

usegalaxy.org support

gatk4

5

111

July 21, 2025

Metagenomic workflow

gtn-tutorial , microgalaxy

4

106

July 21, 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