Topics tagged custom-genome

Topic	Replies	Views	Activity
HISAT2 and RNA STAR reference genomes usegalaxy.org support custom-genome , transcriptomics , reference-genome , custom-build	0	1	March 25, 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	10	39	March 14, 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	14	February 19, 2025
Custom reference genome annotation usegalaxy.org support custom-genome , reference-annotation , reference-genome	6	1078	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	12	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	44	January 22, 2025
RNA STAR options custom-genome	1	14	December 28, 2024
Addition Of Reference Genome custom-genome	2	331	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	14	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	12	November 25, 2024
NCBI BLAST+ blastx custom-genome , mapping , tool-help , ncbi_blastx_wrapper	1	21	October 10, 2024
reference genome for STARsolo usegalaxy.org support reference-index , custom-genome , transcriptomics , tool-help , rna_starsolo	3	34	December 4, 2024
Inquiry about lettuce genome Resources reference-index , custom-genome , reference-annotation , reference-genome , custom-build , resources	2	38	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	56	August 23, 2024
SICER is not available for the genome. reference-index , custom-genome , reference-genome , custom-build , tool-help , peakcalling_sicer	1	18	August 13, 2024
Bowtie2 brucella reference usegalaxy.eu support custom-genome , custom-build , tool-help	1	11	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	449	September 17, 2024
Adding genome reference? usegalaxy.org support reference-index , custom-genome , reference-annotation , reference-genome	2	213	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	124	September 17, 2024
HISAT2 crash/failure usegalaxy.org support custom-genome , troubleshooting , mapping , exceeds-memory-error	7	1427	March 20, 2024
Problems Running MirDeep2 custom-genome , tool-help , rbc_mirdeep2	3	314	March 4, 2024
Reference genome options server-admin , reference-index , custom-genome	1	210	February 14, 2024
Add a new reference genome for RNAstar usegalaxy.org support custom-genome , transcriptomics	1	315	February 1, 2024
Custom reference genome troubleshooting reference-index , custom-genome	1	144	January 30, 2024
Reference genomes at public Galaxy servers: GRCh38/hg38 example Resources reference-index , custom-genome , reference-genome , resources	1	800	January 29, 2024
Custom genome + custom build: How to use a genome that is not natively indexed at the server you are working at Resources fasta-manipulation , custom-genome , reference-genome , custom-build , resources	5	695	January 30, 2024
Reference Genome usegalaxy.org support custom-genome , reference-genome , custom-build	7	519	January 29, 2024
HiSat reference genomce seq.fasta GRCh38 does not work and HiSat2 does not accept other ref.seq.fasta usegalaxy.org support custom-genome , mapping	1	458	December 21, 2023
Mapping Leishmania transcript using RNA STAR custom-genome , reference-annotation , reference-genome , third-party-identities	1	240	December 12, 2023
paired-end histogram failure usegalaxy.org support custom-genome , dropbox , picard_markduplicates	3	275	December 12, 2023