Topics tagged custom-genome

Topic	Replies	Views	Activity
Is a "?" in featureCounts' database field a problem when using a non-built-in genome? usegalaxy.org support custom-genome , transcriptomics , igv , custom-build	1	26	November 24, 2025
BAM index, fasta indexes, display applications, custom genome builds, IGV Resources custom-genome , mapping , igv , custom-build , resources	3	89	September 22, 2025
Newly launched BN rat genome assembly GRCr8 into the reference genome list? usegalaxy.eu support reference-index , custom-genome , reference-annotation , reference-genome	1	31	August 5, 2025
Adding a New Reference Genome for Cannabis sativa usegalaxy.org support custom-genome , reference-annotation , reference-genome	1	37	July 29, 2025
Mapping against a WGS reference usegalaxy.eu support custom-genome , mapping	3	39	July 1, 2025
HISAT2 and RNA STAR reference genomes usegalaxy.org support custom-genome , transcriptomics , reference-genome , custom-build	2	33	April 25, 2025
Adding a reference genome to map RNAseq contig usegalaxy.org support custom-genome , transcriptomics	1	33	April 16, 2025
Reference genome for Camelus dromedarius custom-genome	1	20	April 3, 2025
Getting NCBI Reference genome indexed for tools: custom genome, reference genome, reference annotation reference-index , custom-genome , reference-annotation , reference-genome , featurecounts , reference-transcriptome	11	103	July 22, 2025
Request to upload/add new version of reference genome of Aedes albopictus (Genome assembly AalbF5) usegalaxy.org support reference-index , custom-genome , reference-annotation , reference-genome , reference-transcriptome	1	31	February 19, 2025
Custom reference genome annotation usegalaxy.org support custom-genome , reference-annotation , reference-genome	6	1172	February 14, 2025
How to select a different reference genome from that already present using the tool RNA-STAR usegalaxy.org support custom-genome , reference-annotation , reference-genome , custom-build , rna_star	2	28	February 10, 2025
UCSC Reference Genome and GTF Fatal Error no valid exons in the GTF file usegalaxy.eu support custom-genome , mapping , fastq-format-error , ucsc , rna-seq , featurecounts , fastq-format , rna_star	3	155	January 22, 2025
RNA STAR options custom-genome	1	29	December 28, 2024
Addition Of Reference Genome custom-genome	2	347	December 23, 2024
RNAstar Select Reference Genome - Species Not Available - contact the Galaxy team (--genomeDir) usegalaxy.eu support custom-genome , mapping , reference-annotation , reference-genome , custom-build , reference-transcriptome	1	34	December 4, 2024
Bowtie2 reference genome of Goat (Capra Hircus) usegalaxy.org support reference-index , custom-genome , mapping , reference-annotation , reference-genome , custom-build , tool-help , reference-transcriptome , bowtie2	1	39	November 25, 2024
NCBI BLAST+ blastx custom-genome , mapping , tool-help , ncbi_blastx_wrapper	1	33	October 10, 2024
reference genome for STARsolo usegalaxy.org support reference-index , custom-genome , transcriptomics , tool-help , rna_starsolo	3	79	December 4, 2024
Inquiry about lettuce genome Resources reference-index , custom-genome , reference-annotation , reference-genome , custom-build , resources	2	101	October 7, 2024
I am using HISAT2, but my reference genome Rickettsia rickettsii is missing in the dropdown list. custom-genome , mapping , custom-build	15	111	August 23, 2024
SICER is not available for the genome. reference-index , custom-genome , reference-genome , custom-build , tool-help , peakcalling_sicer	1	44	August 13, 2024
Bowtie2 brucella reference usegalaxy.eu support custom-genome , custom-build , tool-help	1	37	August 13, 2024
FreeBayes variant calling and Snpeff variant annotation Resources freebayes , custom-genome , custom-build , resources , tool-help , variant-analysis , snpeff , snpeff_build_gb	19	662	September 17, 2024
Adding genome reference? usegalaxy.org support reference-index , custom-genome , reference-annotation , reference-genome	2	236	April 23, 2024
How database assignments are used to access a fasta index: custom genomes, custom builds, server indexes Resources fasta-manipulation , database , reference-index , custom-genome , galaxy-local , troubleshooting , custom-build , resources	2	163	September 17, 2024
HISAT2 crash/failure usegalaxy.org support custom-genome , troubleshooting , mapping , exceeds-memory-error	8	1582	July 22, 2025
Problems Running MirDeep2 custom-genome , tool-help , rbc_mirdeep2	3	400	March 4, 2024
Reference genome options server-admin , reference-index , custom-genome	1	228	February 14, 2024
Add a new reference genome for RNAstar usegalaxy.org support custom-genome , transcriptomics	1	333	February 1, 2024